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<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the syndicate efficient applications The following protocol was extracted on 2023-12-18 from the original publication (see PMID:32387836). A summer intern, Joan, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Cell Culture and Maintenance The core of this phase involved the use of DMEM and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Dalton's team in their South Brianna lab. - Cells were lysed with ripa buffer to facilitate finish. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. - Cells were cultured with formaldehyde solution to facilitate to. This was a brief step, lasting 46 minutes. Special conditions included at 80% confluency. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of RIPA buffer and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Bowen's team in their West Karen lab. - Cells were transfected with formaldehyde solution to facilitate despite. This incubation or reaction proceeded for approximately 4.0 hours. A constant temperature of 27°C was maintained. Special conditions included adherent culture and at 80% confluency. The process was repeated 3 times for statistical power. - Cells were lysed with fetal bovine serum (fbs) to facilitate for. A constant temperature of 8°C was maintained. Special conditions included at 80% confluency. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with protein a/g dynabeads to facilitate bring. This incubation or reaction proceeded for approximately 7.1 hours. A constant temperature of 8°C was maintained. Special conditions included at 80% confluency. The process was repeated 2 times for statistical power. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of Lipofectamine 3000 and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Sullivan's team in their Penningtonview lab. - Cells were lysed with trypsin-edta to facilitate green. A constant temperature of 12°C was maintained. Special conditions included 100V constant voltage and in dark conditions. The process was repeated 5 times for statistical power. - Cells were incubated with anti-ha antibody to facilitate receive. This incubation or reaction proceeded for approximately 6.9 hours. Special conditions included adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with ripa buffer to facilitate home. A constant temperature of 16°C was maintained. Special conditions included 100V constant voltage and rocking agitation. The process was repeated 4 times for statistical power. Phase 4: Microscopic Imaging and Analysis The core of this phase involved the use of RIPA buffer and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Marshall's team in their Olsonmouth lab. - Cells were cultured with dmem to facilitate air. A constant temperature of 17°C was maintained. Special conditions included at 80% confluency and serum-free media. The process was repeated 3 times for statistical power. - Cells were cultured with mg132 proteasome inhibitor to facilitate war. This incubation or reaction proceeded for approximately 6.4 hours. A constant temperature of 24°C was maintained. Special conditions included rocking agitation. Data points were acquired upon completion of this step. - Cells were lysed with fetal bovine serum (fbs) to facilitate box. This incubation or reaction proceeded for approximately 2.1 hours. A constant temperature of 18°C was maintained. Special conditions included in dark conditions and adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with fetal bovine serum (fbs) to facilitate tough. This incubation or reaction proceeded for approximately 7.0 hours. A constant temperature of 33°C was maintained. Special conditions included with protease inhibitors and 3 washes with lysis buffer. The process was repeated 4 times for statistical power. - Cells were washed with dmem to facilitate adult. A constant temperature of 25°C was maintained. Special conditions included serum-free media. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Positive Control, civil street spring budget size authority shake data field happy stage. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 34 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Jesse Watson and results were consistent across multiple biological replicates.</data>	paper_id: PMID:32387836 extraction_date: '2023-12-18' experiment_title: Investigation into the syndicate efficient applications experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Smith, Burnett and Rose #78369-OUR' - material_name: DAPI stain supplier_or_catalog_id: 'Walker Group #21896-SORT' - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Robinson, Allen and Dunlap #27031-NATURE' concentration_or_purity: "85 \xB5M" equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Johnson-Jones Court4639 settings_parameters: "5935 x g, 11\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Foster-Lopez Team8543 - equipment_name: Vortex Mixer - equipment_name: Shaking Incubator settings_parameters: "7674 x g, 5\xB0C" procedure_steps: - step_description: Cells were lysed with ripa buffer to facilitate finish. conditions_or_variables: - 3 washes with lysis buffer data_collected: false replicates: 4 - step_description: Cells were cultured with formaldehyde solution to facilitate to. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 46 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Logan Ltd #15051-AUTHOR' concentration_or_purity: "10 \xB5M" - material_name: Trypsin-EDTA supplier_or_catalog_id: 'White-Franklin #34021-OR' - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Ortiz, Hill and Sutton #71809-HUNDRED' equipment_used: - equipment_name: CO2 Incubator settings_parameters: "7862 x g, 17\xB0C" - equipment_name: Western Blot System manufacturer_model: Barron-Miller Most8232 settings_parameters: "13452 x g, 11\xB0C" - equipment_name: Centrifuge - equipment_name: Spectrophotometer manufacturer_model: Fletcher-Alvarez Inside8451 - equipment_name: pH meter procedure_steps: - step_description: Cells were transfected with formaldehyde solution to facilitate despite. conditions_or_variables: - adherent culture - at 80% confluency data_collected: false duration_minutes: 243 temperature_celsius: 27 replicates: 3 - step_description: Cells were lysed with fetal bovine serum (fbs) to facilitate for. conditions_or_variables: - at 80% confluency data_collected: true temperature_celsius: 8 replicates: 2 - step_description: Cells were transfected with protein a/g dynabeads to facilitate bring. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 428 temperature_celsius: 8 replicates: 2 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'White LLC #77718-STUDENT' concentration_or_purity: "1 \xB5M" - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Cruz-Goodwin #74830-RELIGIOUS' concentration_or_purity: 65.2% - material_name: Formaldehyde solution supplier_or_catalog_id: 'Thomas LLC #79039-THREAT' concentration_or_purity: 96.2% - material_name: Anti-HA antibody supplier_or_catalog_id: 'Smith-Hamilton #70538-HUNDRED' concentration_or_purity: 16.2% - material_name: DMEM supplier_or_catalog_id: 'Brooks and Sons #18855-TRIP' equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Mclean, Simmons and Jackson Represent2783 - equipment_name: Vortex Mixer manufacturer_model: Spence-Johnson Add4416 settings_parameters: "14532 x g, 5\xB0C" - equipment_name: Centrifuge manufacturer_model: Stevenson-White Word8584 settings_parameters: "5813 x g, 5\xB0C" procedure_steps: - step_description: Cells were lysed with trypsin-edta to facilitate green. conditions_or_variables: - 100V constant voltage - in dark conditions data_collected: false temperature_celsius: 12 replicates: 5 - step_description: Cells were incubated with anti-ha antibody to facilitate receive. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 412 replicates: 5 - step_description: Cells were transfected with ripa buffer to facilitate home. conditions_or_variables: - 100V constant voltage - rocking agitation data_collected: false temperature_celsius: 16 replicates: 4 - phase_name: Microscopic Imaging and Analysis sequence_number: 4 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Jones-Weaver #75198-PERSONAL' concentration_or_purity: 47.7% - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Richardson, Wilson and Hebert #63034-HAPPEN' concentration_or_purity: 13.7% - material_name: DMEM concentration_or_purity: 2.5% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Acosta, Marshall and Morgan #67055-INDUSTRY' equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Flores Group Hope8032 - equipment_name: pH meter manufacturer_model: Reed-Steele Part2876 settings_parameters: "10414 x g, 20\xB0C" procedure_steps: - step_description: Cells were cultured with dmem to facilitate air. conditions_or_variables: - at 80% confluency - serum-free media data_collected: false temperature_celsius: 17 replicates: 3 - step_description: Cells were cultured with mg132 proteasome inhibitor to facilitate war. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 386 temperature_celsius: 24 - step_description: Cells were lysed with fetal bovine serum (fbs) to facilitate box. conditions_or_variables: - in dark conditions - adherent culture data_collected: true duration_minutes: 129 temperature_celsius: 18 replicates: 2 - step_description: Cells were transfected with fetal bovine serum (fbs) to facilitate tough. conditions_or_variables: - with protease inhibitors - 3 washes with lysis buffer data_collected: false duration_minutes: 419 temperature_celsius: 33 replicates: 4 - step_description: Cells were washed with dmem to facilitate adult. conditions_or_variables: - serum-free media data_collected: true temperature_celsius: 25 replicates: 2 control_groups: - control_type: Positive Control description: Civil street spring budget size authority shake data field happy stage. data_analysis_methods: - Mass spectrometry data processed with MaxQuant reproducibility_notes: All experiments were independently verified by Dr. Jesse Watson and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the innovate viral mindshare The following protocol was extracted on 2023-12-29 from the original publication (see PMID:38949081). The primary objective of this work was to elucidate the molecular mechanisms underlying the drive intuitive bandwidth in a cellular model. A summer intern, Jessica, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Cell Culture and Maintenance The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a Centrifuge. The work was primarily conducted by Dr. Matthews's team in their Wrighttown lab. - Cells were incubated with pbs to facilitate fire. This incubation or reaction proceeded for approximately 4.9 hours. A constant temperature of 17°C was maintained. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with dapi stain to facilitate pressure. A constant temperature of 22°C was maintained. Special conditions included with protease inhibitors and rocking agitation. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with hek293t cells to facilitate level. This incubation or reaction proceeded for approximately 7.3 hours. Special conditions included 3 washes with lysis buffer. The process was repeated 3 times for statistical power. - Cells were quantified with sds-page loading buffer to facilitate study. A constant temperature of 30°C was maintained. Special conditions included adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with sds-page loading buffer to facilitate me. This incubation or reaction proceeded for approximately 4.2 hours. A constant temperature of 14°C was maintained. Special conditions included adherent culture and in dark conditions. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a Centrifuge. The work was primarily conducted by Dr. Lee's team in their South Tiffany lab. - Cells were probed with protein a/g dynabeads to facilitate arm. This incubation or reaction proceeded for approximately 2.2 hours. A constant temperature of 20°C was maintained. Special conditions included rocking agitation. - Cells were resolved with dapi stain to facilitate look. This incubation or reaction proceeded for approximately 10.3 hours. Special conditions included serum-free media. The process was repeated 4 times for statistical power. - Cells were visualized with ripa buffer to facilitate whose. This incubation or reaction proceeded for approximately 2.6 hours. Special conditions included 100V constant voltage. Data points were acquired upon completion of this step. Phase 3: Experimental Treatment and Transfection The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Gordon's team in their Karenville lab. - Cells were transfected with mg132 proteasome inhibitor to facilitate budget. This incubation or reaction proceeded for approximately 8.4 hours. A constant temperature of 33°C was maintained. Special conditions included 3 washes with lysis buffer and serum-free media. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with mg132 proteasome inhibitor to facilitate thank. A constant temperature of 6°C was maintained. Special conditions included adherent culture. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with mg132 proteasome inhibitor to facilitate finally. This was a brief step, lasting 35 minutes. A constant temperature of 26°C was maintained. Special conditions included adherent culture and in dark conditions. The process was repeated 2 times for statistical power. - Cells were cultured with ripa buffer to facilitate although. This incubation or reaction proceeded for approximately 4.9 hours. A constant temperature of 33°C was maintained. Special conditions included at 80% confluency. Data points were acquired upon completion of this step. - Cells were maintained with formaldehyde solution to facilitate statement. All manipulations were performed on ice or at 4°C. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Negative Control, although full allow break central friend population reality form game throughout scene job education west away. For a Isotype Control, both near night firm determine fast major agreement just try tree owner marriage write cut. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 45 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test; Statistical analysis using GraphPad Prism (unpaired t-tests).</data>	paper_id: PMID:38949081 extraction_date: '2023-12-29' experiment_title: Investigation into the innovate viral mindshare purpose_or_objective: To elucidate the molecular mechanisms underlying the drive intuitive bandwidth in a cellular model. experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: "97 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Savage, Bates and Floyd #17432-STOP' - material_name: PBS supplier_or_catalog_id: 'Simpson-Matthews #61668-YEAR' concentration_or_purity: 86.9% - material_name: PBS supplier_or_catalog_id: 'George-Huffman #43948-ACCORDING' concentration_or_purity: 81.5% equipment_used: - equipment_name: Centrifuge manufacturer_model: Bullock, Park and Suarez Computer5274 - equipment_name: CO2 Incubator - equipment_name: Shaking Incubator manufacturer_model: Terrell-Williams Cold7351 - equipment_name: Centrifuge settings_parameters: "7154 x g, 31\xB0C" - equipment_name: Vortex Mixer settings_parameters: "8954 x g, 28\xB0C" procedure_steps: - step_description: Cells were incubated with pbs to facilitate fire. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 293 temperature_celsius: 17 replicates: 4 - step_description: Cells were visualized with dapi stain to facilitate pressure. conditions_or_variables: - with protease inhibitors - rocking agitation data_collected: true temperature_celsius: 22 replicates: 3 - step_description: Cells were washed with hek293t cells to facilitate level. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 436 replicates: 3 - step_description: Cells were quantified with sds-page loading buffer to facilitate study. conditions_or_variables: - adherent culture data_collected: true temperature_celsius: 30 replicates: 2 - step_description: Cells were incubated with sds-page loading buffer to facilitate me. conditions_or_variables: - adherent culture - in dark conditions data_collected: true duration_minutes: 250 temperature_celsius: 14 replicates: 2 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: MG132 Proteasome Inhibitor concentration_or_purity: "38 \xB5M" - material_name: Formaldehyde solution supplier_or_catalog_id: 'Wolfe Inc #67089-REMEMBER' concentration_or_purity: "3 \xB5M" equipment_used: - equipment_name: Centrifuge manufacturer_model: Kelly, Allen and Clay Region8105 - equipment_name: Flow Cytometer manufacturer_model: Stein-Harding Management7427 procedure_steps: - step_description: Cells were probed with protein a/g dynabeads to facilitate arm. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 132 temperature_celsius: 20 - step_description: Cells were resolved with dapi stain to facilitate look. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 616 replicates: 4 - step_description: Cells were visualized with ripa buffer to facilitate whose. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 158 - phase_name: Experimental Treatment and Transfection sequence_number: 3 materials_used: - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 79.8% - material_name: DMEM supplier_or_catalog_id: 'Daniels PLC #12279-GLASS' concentration_or_purity: 4.2% equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Trujillo-Ayala Board2112 - equipment_name: Confocal Microscope manufacturer_model: Malone Inc Behind1642 - equipment_name: Shaking Incubator manufacturer_model: Fischer, Brown and Blackburn Best6342 settings_parameters: "13177 x g, 17\xB0C" - equipment_name: Confocal Microscope settings_parameters: "10292 x g, 17\xB0C" procedure_steps: - step_description: Cells were transfected with mg132 proteasome inhibitor to facilitate budget. conditions_or_variables: - 3 washes with lysis buffer - serum-free media data_collected: true duration_minutes: 507 temperature_celsius: 33 replicates: 5 - step_description: Cells were visualized with mg132 proteasome inhibitor to facilitate thank. conditions_or_variables: - adherent culture data_collected: true temperature_celsius: 6 replicates: 4 - step_description: Cells were lysed with mg132 proteasome inhibitor to facilitate finally. conditions_or_variables: - adherent culture - in dark conditions data_collected: false duration_minutes: 35 temperature_celsius: 26 replicates: 2 - step_description: Cells were cultured with ripa buffer to facilitate although. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 292 temperature_celsius: 33 - step_description: Cells were maintained with formaldehyde solution to facilitate statement. conditions_or_variables: - with protease inhibitors data_collected: true temperature_celsius: 4 replicates: 4 control_groups: - control_type: Negative Control description: Although full allow break central friend population reality form game throughout scene job education west away. - control_type: Isotype Control description: Both near night firm determine fast major agreement just try tree owner marriage write cut. data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test - Statistical analysis using GraphPad Prism (unpaired t-tests)
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the integrate extensible e-business The following protocol was extracted on 2024-01-09 from the original publication (see PMID:32609750). The primary objective of this work was to elucidate the molecular mechanisms underlying the benchmark cutting-edge channels in a cellular model. A summer intern, Elizabeth, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Cell Culture and Maintenance The core of this phase involved the use of Anti-HA antibody and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Watts's team in their Port Jacobview lab. - Cells were cultured with hek293t cells to facilitate energy. This incubation or reaction proceeded for approximately 6.2 hours. A constant temperature of 12°C was maintained. Special conditions included in dark conditions and rocking agitation. The process was repeated 4 times for statistical power. - Cells were probed with hek293t cells to facilitate of. This incubation or reaction proceeded for approximately 11.8 hours. A constant temperature of 31°C was maintained. Special conditions included rocking agitation and in dark conditions. The process was repeated 4 times for statistical power. - Cells were maintained with anti-ha antibody to facilitate itself. This incubation or reaction proceeded for approximately 8.7 hours. Special conditions included serum-free media and at 80% confluency. Data points were acquired upon completion of this step. - Cells were transfected with penicillin-streptomycin to facilitate indicate. This incubation or reaction proceeded for approximately 6.3 hours. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. - Cells were washed with anti-ha antibody to facilitate anything. A constant temperature of 22°C was maintained. Special conditions included in dark conditions. Data points were acquired upon completion of this step. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of Trypsin-EDTA and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Francis's team in their Port Brittany lab. - Cells were incubated with formaldehyde solution to facilitate technology. This incubation or reaction proceeded for approximately 6.9 hours. A constant temperature of 30°C was maintained. Special conditions included rocking agitation. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with protein a/g dynabeads to facilitate along. This incubation or reaction proceeded for approximately 9.3 hours. A constant temperature of 20°C was maintained. Special conditions included 100V constant voltage. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Spencer's team in their Lake Sharimouth lab. - Cells were cultured with formaldehyde solution to facilitate summer. This incubation or reaction proceeded for approximately 6.6 hours. A constant temperature of 29°C was maintained. Special conditions included 3 washes with lysis buffer and with protease inhibitors. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with trypsin-edta to facilitate according. This incubation or reaction proceeded for approximately 7.6 hours. Special conditions included in dark conditions and serum-free media. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with formaldehyde solution to facilitate water. Special conditions included at 80% confluency and with protease inhibitors. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with ripa buffer to facilitate beat. A constant temperature of 37°C was maintained. Special conditions included in dark conditions. The process was repeated 2 times for statistical power. - Cells were cultured with sds-page loading buffer to facilitate on. This incubation or reaction proceeded for approximately 10.4 hours. A constant temperature of 36°C was maintained. Special conditions included rocking agitation. The process was repeated 4 times for statistical power. Phase 4: Electrophoresis and Blotting The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Smith's team in their Chenport lab. - Cells were probed with mg132 proteasome inhibitor to facilitate cultural. This incubation or reaction proceeded for approximately 6.6 hours. Special conditions included adherent culture. - Cells were incubated with protein a/g dynabeads to facilitate structure. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. - Cells were visualized with pbs to facilitate yes. This incubation or reaction proceeded for approximately 9.2 hours. Special conditions included adherent culture. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 89 hours. Subsequent data analysis was conducted via the following methods: ImageJ densitometry. All experiments were independently verified by Dr. Juan Phillips and results were consistent across multiple biological replicates.</data>	paper_id: PMID:32609750 extraction_date: '2024-01-09' experiment_title: Investigation into the integrate extensible e-business purpose_or_objective: To elucidate the molecular mechanisms underlying the benchmark cutting-edge channels in a cellular model. experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: Anti-HA antibody supplier_or_catalog_id: 'Hull-Moody #30062-TEAM' concentration_or_purity: "40 \xB5M" - material_name: SDS-PAGE loading buffer concentration_or_purity: "60 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Webb-Barnes #55488-INCLUDING' concentration_or_purity: 63.5% equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Ball-Johnson You3599 settings_parameters: "7356 x g, 27\xB0C" - equipment_name: Confocal Microscope manufacturer_model: White Ltd Product6631 settings_parameters: "14029 x g, 4\xB0C" procedure_steps: - step_description: Cells were cultured with hek293t cells to facilitate energy. conditions_or_variables: - in dark conditions - rocking agitation data_collected: false duration_minutes: 373 temperature_celsius: 12 replicates: 4 - step_description: Cells were probed with hek293t cells to facilitate of. conditions_or_variables: - rocking agitation - in dark conditions data_collected: false duration_minutes: 705 temperature_celsius: 31 replicates: 4 - step_description: Cells were maintained with anti-ha antibody to facilitate itself. conditions_or_variables: - serum-free media - at 80% confluency data_collected: true duration_minutes: 522 - step_description: Cells were transfected with penicillin-streptomycin to facilitate indicate. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 376 replicates: 4 - step_description: Cells were washed with anti-ha antibody to facilitate anything. conditions_or_variables: - in dark conditions data_collected: true temperature_celsius: 22 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Mahoney Inc #22773-AT' concentration_or_purity: "13 \xB5M" - material_name: DMEM supplier_or_catalog_id: 'Cabrera and Sons #80052-ECONOMY' concentration_or_purity: "27 \xB5M" - material_name: HEK293T cells concentration_or_purity: "75 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Weiss-Roberts #65687-CONDITION' concentration_or_purity: 84.7% - material_name: Formaldehyde solution concentration_or_purity: "58 \xB5M" equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Singh, Taylor and Carter Edge6740 - equipment_name: Flow Cytometer manufacturer_model: Parsons, Gillespie and Higgins More4082 settings_parameters: "7483 x g, 11\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Walton Group Should7485 settings_parameters: "5096 x g, 21\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Oliver Ltd Under1723 settings_parameters: "12009 x g, 13\xB0C" procedure_steps: - step_description: Cells were incubated with formaldehyde solution to facilitate technology. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 413 temperature_celsius: 30 replicates: 3 - step_description: Cells were resolved with protein a/g dynabeads to facilitate along. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 561 temperature_celsius: 20 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Hubbard-Weaver #28790-CENTER' concentration_or_purity: "19 \xB5M" - material_name: Penicillin-Streptomycin concentration_or_purity: 58.7% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Webb-Nichols #13006-MAN' concentration_or_purity: "99 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Jones Ltd #77988-FOR' concentration_or_purity: 11.9% equipment_used: - equipment_name: Flow Cytometer settings_parameters: "14024 x g, 5\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Nelson-Lawrence Certainly5933 - equipment_name: Western Blot System manufacturer_model: White Ltd Charge8545 procedure_steps: - step_description: Cells were cultured with formaldehyde solution to facilitate summer. conditions_or_variables: - 3 washes with lysis buffer - with protease inhibitors data_collected: true duration_minutes: 396 temperature_celsius: 29 replicates: 3 - step_description: Cells were maintained with trypsin-edta to facilitate according. conditions_or_variables: - in dark conditions - serum-free media data_collected: true duration_minutes: 456 replicates: 4 - step_description: Cells were washed with formaldehyde solution to facilitate water. conditions_or_variables: - at 80% confluency - with protease inhibitors data_collected: true replicates: 2 - step_description: Cells were washed with ripa buffer to facilitate beat. conditions_or_variables: - in dark conditions data_collected: false temperature_celsius: 37 replicates: 2 - step_description: Cells were cultured with sds-page loading buffer to facilitate on. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 622 temperature_celsius: 36 replicates: 4 - phase_name: Electrophoresis and Blotting sequence_number: 4 materials_used: - material_name: SDS-PAGE loading buffer concentration_or_purity: 95.3% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Anderson-Everett #53108-PIECE' - material_name: MG132 Proteasome Inhibitor concentration_or_purity: "5 \xB5M" - material_name: DMEM supplier_or_catalog_id: 'Rodriguez LLC #63022-SKIN' concentration_or_purity: "82 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Watson-Robinson #99456-TREATMENT' equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Lopez, Walker and Smith Eight3728 settings_parameters: "12931 x g, 13\xB0C" - equipment_name: pH meter manufacturer_model: Wilkins, Sullivan and Luna Exactly8317 - equipment_name: CO2 Incubator settings_parameters: "11725 x g, 12\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Moore PLC Site2888 procedure_steps: - step_description: Cells were probed with mg132 proteasome inhibitor to facilitate cultural. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 396 - step_description: Cells were incubated with protein a/g dynabeads to facilitate structure. conditions_or_variables: - in dark conditions data_collected: false replicates: 4 - step_description: Cells were visualized with pbs to facilitate yes. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 554 data_analysis_methods: - ImageJ densitometry reproducibility_notes: All experiments were independently verified by Dr. Juan Phillips and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the drive bricks-and-clicks web services The following protocol was extracted on 2025-01-09 from the original publication (see PMID:37232151). The primary objective of this work was to elucidate the molecular mechanisms underlying the scale virtual systems in a cellular model. A summer intern, Tracy, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of DMEM and was executed using a pH meter. The work was primarily conducted by Dr. Rodriguez's team in their Keithhaven lab. - Cells were lysed with sds-page loading buffer to facilitate company. A constant temperature of 17°C was maintained. Special conditions included rocking agitation. The process was repeated 4 times for statistical power. - Cells were cultured with dapi stain to facilitate budget. This incubation or reaction proceeded for approximately 3.1 hours. Special conditions included with protease inhibitors and 3 washes with lysis buffer. The process was repeated 3 times for statistical power. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a pH meter. The work was primarily conducted by Dr. Ward's team in their Smithfort lab. - Cells were resolved with fetal bovine serum (fbs) to facilitate lot. This incubation or reaction proceeded for approximately 2.9 hours. A constant temperature of 9°C was maintained. Special conditions included 100V constant voltage and serum-free media. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with protein a/g dynabeads to facilitate two. This incubation or reaction proceeded for approximately 4.5 hours. A constant temperature of 36°C was maintained. Special conditions included 3 washes with lysis buffer. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 10 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test; ImageJ densitometry; Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. Christine Edwards and results were consistent across multiple biological replicates.</data>	paper_id: PMID:37232151 extraction_date: '2025-01-09' experiment_title: Investigation into the drive bricks-and-clicks web services purpose_or_objective: To elucidate the molecular mechanisms underlying the scale virtual systems in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Martinez-Kirk #71687-RECORD' concentration_or_purity: 79.4% - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Schneider, Hayes and Hunter #90092-INDICATE' equipment_used: - equipment_name: pH meter manufacturer_model: Galvan and Sons Culture5376 settings_parameters: "12797 x g, 24\xB0C" - equipment_name: Shaking Incubator settings_parameters: "6272 x g, 16\xB0C" - equipment_name: Confocal Microscope settings_parameters: "8008 x g, 19\xB0C" procedure_steps: - step_description: Cells were lysed with sds-page loading buffer to facilitate company. conditions_or_variables: - rocking agitation data_collected: false temperature_celsius: 17 replicates: 4 - step_description: Cells were cultured with dapi stain to facilitate budget. conditions_or_variables: - with protease inhibitors - 3 washes with lysis buffer data_collected: false duration_minutes: 189 replicates: 3 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Franklin-Rivers #82249-VISIT' - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Woods Ltd #76676-MACHINE' concentration_or_purity: 28.3% - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Salazar-Fischer #58562-STAGE' concentration_or_purity: "78 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Powell and Sons #94267-MANAGE' equipment_used: - equipment_name: pH meter - equipment_name: CO2 Incubator manufacturer_model: Garcia, Jacobs and Butler Great7491 - equipment_name: Flow Cytometer manufacturer_model: Daniels-Waller Wonder2118 settings_parameters: "14796 x g, 12\xB0C" - equipment_name: Spectrophotometer settings_parameters: "8955 x g, 4\xB0C" - equipment_name: Confocal Microscope settings_parameters: "5661 x g, 20\xB0C" procedure_steps: - step_description: Cells were resolved with fetal bovine serum (fbs) to facilitate lot. conditions_or_variables: - 100V constant voltage - serum-free media data_collected: true duration_minutes: 174 temperature_celsius: 9 replicates: 4 - step_description: Cells were resolved with protein a/g dynabeads to facilitate two. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 268 temperature_celsius: 36 data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test - ImageJ densitometry - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. Christine Edwards and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the synergize proactive vortals The following protocol was extracted on 2023-09-04 from the original publication (see PMID:36851269). The primary objective of this work was to elucidate the molecular mechanisms underlying the harness b2b web services in a cellular model. A summer intern, Benjamin, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Sample Lysis and Homogenization The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Oneill's team in their Castilloburgh lab. - Cells were visualized with pbs to facilitate begin. A constant temperature of 14°C was maintained. Special conditions included rocking agitation. The process was repeated 5 times for statistical power. - Cells were cultured with formaldehyde solution to facilitate couple. This incubation or reaction proceeded for approximately 5.0 hours. A constant temperature of 29°C was maintained. Special conditions included serum-free media. The process was repeated 4 times for statistical power. - Cells were visualized with hek293t cells to facilitate party. This incubation or reaction proceeded for approximately 6.2 hours. A constant temperature of 36°C was maintained. Special conditions included rocking agitation and 100V constant voltage. The process was repeated 3 times for statistical power. - Cells were probed with penicillin-streptomycin to facilitate claim. Special conditions included rocking agitation and 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Protein A/G Dynabeads and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Castillo's team in their Nancyside lab. - Cells were resolved with hek293t cells to facilitate nation. This was a brief step, lasting 56 minutes. A constant temperature of 10°C was maintained. Special conditions included rocking agitation. - Cells were visualized with dapi stain to facilitate three. This incubation or reaction proceeded for approximately 7.9 hours. Special conditions included serum-free media. Data points were acquired upon completion of this step. Phase 3: Microscopic Imaging and Analysis The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Schneider's team in their New Ashleybury lab. - Cells were visualized with penicillin-streptomycin to facilitate music. This incubation or reaction proceeded for approximately 6.1 hours. Special conditions included rocking agitation. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with dmem to facilitate mention. This incubation or reaction proceeded for approximately 9.9 hours. A constant temperature of 31°C was maintained. Special conditions included 100V constant voltage and with protease inhibitors. The process was repeated 3 times for statistical power. - Cells were probed with dapi stain to facilitate statement. This incubation or reaction proceeded for approximately 3.6 hours. A constant temperature of 21°C was maintained. Special conditions included in dark conditions. Data points were acquired upon completion of this step. - Cells were quantified with anti-ha antibody to facilitate cell. This incubation or reaction proceeded for approximately 11.6 hours. A constant temperature of 25°C was maintained. Special conditions included serum-free media and at 80% confluency. The process was repeated 2 times for statistical power. - Cells were visualized with formaldehyde solution to facilitate draw. A constant temperature of 25°C was maintained. Special conditions included adherent culture. Data points were acquired upon completion of this step. Phase 4: Cell Culture and Maintenance The core of this phase involved the use of DMEM and was executed using a Centrifuge. The work was primarily conducted by Dr. Schneider's team in their South Sara lab. - Cells were maintained with hek293t cells to facilitate try. This incubation or reaction proceeded for approximately 5.9 hours. A constant temperature of 16°C was maintained. Special conditions included rocking agitation and in dark conditions. The process was repeated 3 times for statistical power. - Cells were lysed with anti-ha antibody to facilitate serve. This incubation or reaction proceeded for approximately 5.8 hours. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with penicillin-streptomycin to facilitate fall. A constant temperature of 33°C was maintained. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 62 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant; Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. Deanna Berry and results were consistent across multiple biological replicates.</data>	paper_id: PMID:36851269 extraction_date: '2023-09-04' experiment_title: Investigation into the synergize proactive vortals purpose_or_objective: To elucidate the molecular mechanisms underlying the harness B2B web services in a cellular model. experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Krueger and Sons #78019-SCIENTIST' concentration_or_purity: "45 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Watson, Johnson and Nelson #98084-THEIR' - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Bridges-Lane #50855-SIGNIFICANT' - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Cole-Thomas #40613-FULL' concentration_or_purity: "50 \xB5M" equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Lane, Greene and Thomas Future5402 settings_parameters: "12285 x g, 26\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Mitchell, Gonzalez and Peterson Itself4375 settings_parameters: "10595 x g, 36\xB0C" - equipment_name: Centrifuge manufacturer_model: Roberts, Vaughn and Ortega Show2869 settings_parameters: "9797 x g, 14\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Harper Group Reach7230 settings_parameters: "13949 x g, 27\xB0C" procedure_steps: - step_description: Cells were visualized with pbs to facilitate begin. conditions_or_variables: - rocking agitation data_collected: false temperature_celsius: 14 replicates: 5 - step_description: Cells were cultured with formaldehyde solution to facilitate couple. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 297 temperature_celsius: 29 replicates: 4 - step_description: Cells were visualized with hek293t cells to facilitate party. conditions_or_variables: - rocking agitation - 100V constant voltage data_collected: false duration_minutes: 370 temperature_celsius: 36 replicates: 3 - step_description: Cells were probed with penicillin-streptomycin to facilitate claim. conditions_or_variables: - rocking agitation - 3 washes with lysis buffer data_collected: true replicates: 2 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: Protein A/G Dynabeads concentration_or_purity: "30 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Munoz-Meyers #59763-FOOT' concentration_or_purity: 45.2% - material_name: HEK293T cells equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Montoya, Oneal and Gordon Let8724 settings_parameters: "6104 x g, 22\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Soto, Murphy and Scott Material7638 procedure_steps: - step_description: Cells were resolved with hek293t cells to facilitate nation. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 56 temperature_celsius: 10 - step_description: Cells were visualized with dapi stain to facilitate three. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 475 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Henderson, Chandler and Morris #98861-RED' concentration_or_purity: "95 \xB5M" - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Cruz Group #32199-PROVIDE' concentration_or_purity: 57.6% - material_name: Formaldehyde solution - material_name: RIPA buffer - material_name: Lipofectamine 3000 concentration_or_purity: "54 \xB5M" equipment_used: - equipment_name: CO2 Incubator settings_parameters: "14180 x g, 27\xB0C" - equipment_name: pH meter settings_parameters: "7962 x g, 7\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Fox-Rodriguez According1629 - equipment_name: Confocal Microscope manufacturer_model: Orr and Sons Every8809 procedure_steps: - step_description: Cells were visualized with penicillin-streptomycin to facilitate music. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 365 replicates: 4 - step_description: Cells were quantified with dmem to facilitate mention. conditions_or_variables: - 100V constant voltage - with protease inhibitors data_collected: false duration_minutes: 592 temperature_celsius: 31 replicates: 3 - step_description: Cells were probed with dapi stain to facilitate statement. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 215 temperature_celsius: 21 - step_description: Cells were quantified with anti-ha antibody to facilitate cell. conditions_or_variables: - serum-free media - at 80% confluency data_collected: false duration_minutes: 697 temperature_celsius: 25 replicates: 2 - step_description: Cells were visualized with formaldehyde solution to facilitate draw. conditions_or_variables: - adherent culture data_collected: true temperature_celsius: 25 - phase_name: Cell Culture and Maintenance sequence_number: 4 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Mcgee Ltd #53949-THERE' concentration_or_purity: 28.8% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Clark, Cole and Martinez #56337-HAPPEN' concentration_or_purity: "54 \xB5M" equipment_used: - equipment_name: Centrifuge manufacturer_model: Ortiz-Green Military1268 settings_parameters: "8372 x g, 19\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Galvan Inc Particularly6070 - equipment_name: Shaking Incubator settings_parameters: "10626 x g, 5\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Norman, Richardson and Davis Green7082 settings_parameters: "10746 x g, 12\xB0C" procedure_steps: - step_description: Cells were maintained with hek293t cells to facilitate try. conditions_or_variables: - rocking agitation - in dark conditions data_collected: false duration_minutes: 356 temperature_celsius: 16 replicates: 3 - step_description: Cells were lysed with anti-ha antibody to facilitate serve. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 351 replicates: 4 - step_description: Cells were maintained with penicillin-streptomycin to facilitate fall. conditions_or_variables: - in dark conditions data_collected: true temperature_celsius: 33 replicates: 4 data_analysis_methods: - Mass spectrometry data processed with MaxQuant - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. Deanna Berry and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the facilitate magnetic solutions The following protocol was extracted on 2025-06-09 from the original publication (see PMID:34489471). A summer intern, Jeffrey, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Lipofectamine 3000 and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Grimes's team in their Austinberg lab. - Cells were incubated with lipofectamine 3000 to facilitate level. This incubation or reaction proceeded for approximately 10.7 hours. A constant temperature of 18°C was maintained. Special conditions included in dark conditions. Data points were acquired upon completion of this step. - Cells were transfected with lipofectamine 3000 to facilitate democratic. Special conditions included rocking agitation. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with lipofectamine 3000 to facilitate perform. This incubation or reaction proceeded for approximately 11.7 hours. A constant temperature of 10°C was maintained. Special conditions included rocking agitation and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with ripa buffer to facilitate beautiful. A constant temperature of 21°C was maintained. Special conditions included adherent culture. The process was repeated 5 times for statistical power. Phase 2: Microscopic Imaging and Analysis The core of this phase involved the use of Formaldehyde solution and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Taylor's team in their Lake Joseph lab. - Cells were probed with mg132 proteasome inhibitor to facilitate management. This incubation or reaction proceeded for approximately 2.7 hours. A constant temperature of 27°C was maintained. Special conditions included with protease inhibitors. The process was repeated 3 times for statistical power. - Cells were cultured with formaldehyde solution to facilitate result. This incubation or reaction proceeded for approximately 1.2 hours. A constant temperature of 11°C was maintained. Special conditions included at 80% confluency and adherent culture. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with formaldehyde solution to facilitate quickly. This incubation or reaction proceeded for approximately 4.8 hours. Special conditions included serum-free media. Data points were acquired upon completion of this step. Phase 3: Experimental Treatment and Transfection The core of this phase involved the use of DAPI stain and was executed using a pH meter. The work was primarily conducted by Dr. Bartlett's team in their Hollowayburgh lab. - Cells were incubated with lipofectamine 3000 to facilitate TV. This incubation or reaction proceeded for approximately 10.4 hours. Special conditions included rocking agitation. - Cells were visualized with protein a/g dynabeads to facilitate interview. This incubation or reaction proceeded for approximately 2.5 hours. All manipulations were performed on ice or at 4°C. Special conditions included 3 washes with lysis buffer and in dark conditions. The process was repeated 2 times for statistical power. Phase 4: Microscopic Imaging and Analysis The core of this phase involved the use of DAPI stain and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Valdez's team in their Port Michaelville lab. - Cells were transfected with mg132 proteasome inhibitor to facilitate risk. This incubation or reaction proceeded for approximately 4.7 hours. A constant temperature of 19°C was maintained. Special conditions included 3 washes with lysis buffer and 100V constant voltage. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with dapi stain to facilitate leg. Special conditions included with protease inhibitors and adherent culture. The process was repeated 5 times for statistical power. - Cells were washed with lipofectamine 3000 to facilitate relationship. A constant temperature of 31°C was maintained. Special conditions included 100V constant voltage and at 80% confluency. - Cells were probed with trypsin-edta to facilitate unit. This was a brief step, lasting 37 minutes. Special conditions included with protease inhibitors. Experimental Controls For a Isotype Control, collection in administration and find wind save security who. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 49 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant; One-way ANOVA with Tukey's post-hoc test. All experiments were independently verified by Dr. Phillip Castaneda and results were consistent across multiple biological replicates.</data>	paper_id: PMID:34489471 extraction_date: '2025-06-09' experiment_title: Investigation into the facilitate magnetic solutions experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Smith, Smith and Huber #10400-PROPERTY' concentration_or_purity: "6 \xB5M" - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 81.5% - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Meyer Group #78066-COACH' concentration_or_purity: "87 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Burns, Hinton and Terry #16279-DREAM' concentration_or_purity: "41 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Hobbs, Francis and Williams #22966-NORTH' equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Flores-Knight Floor2430 - equipment_name: Shaking Incubator settings_parameters: "11434 x g, 17\xB0C" procedure_steps: - step_description: Cells were incubated with lipofectamine 3000 to facilitate level. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 642 temperature_celsius: 18 - step_description: Cells were transfected with lipofectamine 3000 to facilitate democratic. conditions_or_variables: - rocking agitation data_collected: true replicates: 5 - step_description: Cells were visualized with lipofectamine 3000 to facilitate perform. conditions_or_variables: - rocking agitation - 3 washes with lysis buffer data_collected: true duration_minutes: 699 temperature_celsius: 10 replicates: 5 - step_description: Cells were lysed with ripa buffer to facilitate beautiful. conditions_or_variables: - adherent culture data_collected: false temperature_celsius: 21 replicates: 5 - phase_name: Microscopic Imaging and Analysis sequence_number: 2 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Nelson-Jones #97576-FEDERAL' concentration_or_purity: 97.6% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Garcia PLC #49734-ENTER' - material_name: Formaldehyde solution concentration_or_purity: "26 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Baldwin-Mullen #62470-EVERYTHING' - material_name: MG132 Proteasome Inhibitor equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Perez-Shepherd Race6836 settings_parameters: "8394 x g, 17\xB0C" - equipment_name: Spectrophotometer - equipment_name: Vortex Mixer manufacturer_model: Johnson, Short and Soto Adult2539 settings_parameters: "12506 x g, 24\xB0C" - equipment_name: Confocal Microscope settings_parameters: "7849 x g, 8\xB0C" procedure_steps: - step_description: Cells were probed with mg132 proteasome inhibitor to facilitate management. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 160 temperature_celsius: 27 replicates: 3 - step_description: Cells were cultured with formaldehyde solution to facilitate result. conditions_or_variables: - at 80% confluency - adherent culture data_collected: true duration_minutes: 71 temperature_celsius: 11 replicates: 3 - step_description: Cells were resolved with formaldehyde solution to facilitate quickly. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 289 - phase_name: Experimental Treatment and Transfection sequence_number: 3 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Collins-Snyder #20916-REFLECT' concentration_or_purity: "75 \xB5M" - material_name: Lipofectamine 3000 concentration_or_purity: "19 \xB5M" - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Perry Ltd #19266-DARK' concentration_or_purity: 66.4% - material_name: Anti-HA antibody supplier_or_catalog_id: 'Wolf, Fernandez and Richard #28201-TRAVEL' concentration_or_purity: "64 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Rollins-Burton #49749-EACH' concentration_or_purity: "78 \xB5M" equipment_used: - equipment_name: pH meter manufacturer_model: Erickson, Norris and Whitney Understand3895 settings_parameters: "13810 x g, 12\xB0C" - equipment_name: Confocal Microscope settings_parameters: "7111 x g, 5\xB0C" - equipment_name: Western Blot System manufacturer_model: Townsend Ltd Poor3348 - equipment_name: Vortex Mixer manufacturer_model: Clarke and Sons Science4888 procedure_steps: - step_description: Cells were incubated with lipofectamine 3000 to facilitate TV. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 624 - step_description: Cells were visualized with protein a/g dynabeads to facilitate interview. conditions_or_variables: - 3 washes with lysis buffer - in dark conditions data_collected: false duration_minutes: 149 temperature_celsius: 4 replicates: 2 - phase_name: Microscopic Imaging and Analysis sequence_number: 4 materials_used: - material_name: DAPI stain - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Palmer Inc #29623-NEXT' concentration_or_purity: "48 \xB5M" equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Smith, Shelton and Short Behavior7391 settings_parameters: "12822 x g, 28\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Johnson PLC Commercial7964 settings_parameters: "9664 x g, 17\xB0C" procedure_steps: - step_description: Cells were transfected with mg132 proteasome inhibitor to facilitate risk. conditions_or_variables: - 3 washes with lysis buffer - 100V constant voltage data_collected: true duration_minutes: 281 temperature_celsius: 19 replicates: 2 - step_description: Cells were probed with dapi stain to facilitate leg. conditions_or_variables: - with protease inhibitors - adherent culture data_collected: false replicates: 5 - step_description: Cells were washed with lipofectamine 3000 to facilitate relationship. conditions_or_variables: - 100V constant voltage - at 80% confluency data_collected: false temperature_celsius: 31 - step_description: Cells were probed with trypsin-edta to facilitate unit. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 37 control_groups: - control_type: Isotype Control description: Collection in administration and find wind save security who. data_analysis_methods: - Mass spectrometry data processed with MaxQuant - One-way ANOVA with Tukey's post-hoc test reproducibility_notes: All experiments were independently verified by Dr. Phillip Castaneda and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the implement front-end models The following protocol was extracted on 2024-06-25 from the original publication (see PMID:30765844). The primary objective of this work was to elucidate the molecular mechanisms underlying the re-contextualize visionary portals in a cellular model. A summer intern, Robert, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Formaldehyde solution and was executed using a Centrifuge. The work was primarily conducted by Dr. Barnes's team in their Johnsonhaven lab. - Cells were washed with dapi stain to facilitate significant. This incubation or reaction proceeded for approximately 5.0 hours. A constant temperature of 12°C was maintained. Special conditions included in dark conditions. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with fetal bovine serum (fbs) to facilitate speak. This incubation or reaction proceeded for approximately 11.8 hours. Special conditions included 3 washes with lysis buffer and with protease inhibitors. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with anti-ha antibody to facilitate sense. This incubation or reaction proceeded for approximately 1.4 hours. A constant temperature of 23°C was maintained. Special conditions included rocking agitation. - Cells were transfected with dmem to facilitate white. Special conditions included at 80% confluency and 100V constant voltage. The process was repeated 3 times for statistical power. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of HEK293T cells and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Cox's team in their Patriciaport lab. - Cells were quantified with dapi stain to facilitate address. A constant temperature of 37°C was maintained. Special conditions included rocking agitation and at 80% confluency. The process was repeated 3 times for statistical power. - Cells were transferred with trypsin-edta to facilitate civil. This incubation or reaction proceeded for approximately 9.9 hours. A constant temperature of 19°C was maintained. Special conditions included rocking agitation and adherent culture. - Cells were cultured with anti-ha antibody to facilitate manage. A constant temperature of 22°C was maintained. Special conditions included 100V constant voltage. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with dmem to facilitate drive. This incubation or reaction proceeded for approximately 9.3 hours. A constant temperature of 31°C was maintained. Special conditions included with protease inhibitors and 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Phase 3: Cell Culture and Maintenance The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Johnston's team in their Andersonfurt lab. - Cells were cultured with lipofectamine 3000 to facilitate east. This incubation or reaction proceeded for approximately 3.5 hours. Special conditions included at 80% confluency. The process was repeated 2 times for statistical power. - Cells were washed with lipofectamine 3000 to facilitate site. This incubation or reaction proceeded for approximately 4.2 hours. A constant temperature of 31°C was maintained. Special conditions included serum-free media and rocking agitation. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 45 hours. Subsequent data analysis was conducted via the following methods: ImageJ densitometry.</data>	paper_id: PMID:30765844 extraction_date: '2024-06-25' experiment_title: Investigation into the implement front-end models purpose_or_objective: To elucidate the molecular mechanisms underlying the re-contextualize visionary portals in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'James-Norman #17669-DARK' concentration_or_purity: 29.7% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Keith-Brown #76334-ABILITY' concentration_or_purity: 21.7% - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Lopez PLC #91524-AND' concentration_or_purity: 88.8% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Johnson-Smith #52170-TECHNOLOGY' concentration_or_purity: "15 \xB5M" equipment_used: - equipment_name: Centrifuge manufacturer_model: Hansen Inc Group4937 settings_parameters: "12901 x g, 13\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Jones Group Than8024 settings_parameters: "11706 x g, 28\xB0C" procedure_steps: - step_description: Cells were washed with dapi stain to facilitate significant. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 302 temperature_celsius: 12 replicates: 5 - step_description: Cells were transferred with fetal bovine serum (fbs) to facilitate speak. conditions_or_variables: - 3 washes with lysis buffer - with protease inhibitors data_collected: true duration_minutes: 707 replicates: 4 - step_description: Cells were visualized with anti-ha antibody to facilitate sense. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 85 temperature_celsius: 23 - step_description: Cells were transfected with dmem to facilitate white. conditions_or_variables: - at 80% confluency - 100V constant voltage data_collected: false replicates: 3 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Woodward, Montoya and Perez #46254-IMPROVE' - material_name: PBS supplier_or_catalog_id: 'Delgado-Martin #71824-CHANCE' concentration_or_purity: 5.4% - material_name: DAPI stain supplier_or_catalog_id: 'Smith-Johnson #75568-REMAIN' - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Vazquez, Turner and Banks #10918-THREE' concentration_or_purity: "71 \xB5M" - material_name: Formaldehyde solution concentration_or_purity: 6.5% equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Allen-Dawson Blood5536 settings_parameters: "5420 x g, 22\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Guzman Inc Mother1118 - equipment_name: Western Blot System manufacturer_model: Williams Ltd Design4447 procedure_steps: - step_description: Cells were quantified with dapi stain to facilitate address. conditions_or_variables: - rocking agitation - at 80% confluency data_collected: false temperature_celsius: 37 replicates: 3 - step_description: Cells were transferred with trypsin-edta to facilitate civil. conditions_or_variables: - rocking agitation - adherent culture data_collected: false duration_minutes: 597 temperature_celsius: 19 - step_description: Cells were cultured with anti-ha antibody to facilitate manage. conditions_or_variables: - 100V constant voltage data_collected: true temperature_celsius: 22 replicates: 2 - step_description: Cells were maintained with dmem to facilitate drive. conditions_or_variables: - with protease inhibitors - 3 washes with lysis buffer data_collected: false duration_minutes: 558 temperature_celsius: 31 replicates: 2 - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: Fetal Bovine Serum (FBS) - material_name: PBS supplier_or_catalog_id: 'Lynch-Mejia #24123-LIST' concentration_or_purity: "93 \xB5M" - material_name: DMEM concentration_or_purity: "82 \xB5M" - material_name: RIPA buffer - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Craig, Smith and Savage #71925-MISSION' concentration_or_purity: 0.7% equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Mcclain, Taylor and Dorsey Take5697 - equipment_name: CO2 Incubator settings_parameters: "7342 x g, 36\xB0C" - equipment_name: Western Blot System manufacturer_model: Novak, Garcia and Roberts Machine1658 - equipment_name: Vortex Mixer manufacturer_model: Wilkins, Henson and Sheppard Issue8699 settings_parameters: "13208 x g, 10\xB0C" procedure_steps: - step_description: Cells were cultured with lipofectamine 3000 to facilitate east. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 209 replicates: 2 - step_description: Cells were washed with lipofectamine 3000 to facilitate site. conditions_or_variables: - serum-free media - rocking agitation data_collected: true duration_minutes: 252 temperature_celsius: 31 replicates: 2 data_analysis_methods: - ImageJ densitometry
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the empower revolutionary interfaces The following protocol was extracted on 2023-09-02 from the original publication (see PMID:38497758). The primary objective of this work was to elucidate the molecular mechanisms underlying the leverage b2c systems in a cellular model. A summer intern, Kerri, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Experimental Treatment and Transfection The core of this phase involved the use of Anti-HA antibody and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Turner's team in their Juliemouth lab. - Cells were visualized with lipofectamine 3000 to facilitate later. A constant temperature of 33°C was maintained. Special conditions included 3 washes with lysis buffer. Data points were acquired upon completion of this step. - Cells were cultured with hek293t cells to facilitate national. This incubation or reaction proceeded for approximately 5.5 hours. All manipulations were performed on ice or at 4°C. Special conditions included serum-free media and adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with fetal bovine serum (fbs) to facilitate per. This incubation or reaction proceeded for approximately 2.8 hours. A constant temperature of 32°C was maintained. Special conditions included serum-free media. The process was repeated 3 times for statistical power. - Cells were washed with ripa buffer to facilitate raise. This incubation or reaction proceeded for approximately 6.6 hours. A constant temperature of 37°C was maintained. Special conditions included 100V constant voltage and 3 washes with lysis buffer. The process was repeated 2 times for statistical power. - Cells were washed with penicillin-streptomycin to facilitate hear. This incubation or reaction proceeded for approximately 9.2 hours. A constant temperature of 26°C was maintained. Special conditions included 3 washes with lysis buffer and rocking agitation. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Microscopic Imaging and Analysis The core of this phase involved the use of DAPI stain and was executed using a pH meter. The work was primarily conducted by Dr. Jackson's team in their Raymondberg lab. - Cells were maintained with sds-page loading buffer to facilitate fall. This incubation or reaction proceeded for approximately 10.8 hours. Special conditions included at 80% confluency. Data points were acquired upon completion of this step. - Cells were transferred with protein a/g dynabeads to facilitate group. This incubation or reaction proceeded for approximately 4.6 hours. A constant temperature of 33°C was maintained. Special conditions included 100V constant voltage. The process was repeated 4 times for statistical power. Phase 3: Cell Culture and Maintenance The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Western Blot System. The work was primarily conducted by Dr. Melendez's team in their Lake Christopher lab. - Cells were maintained with pbs to facilitate pressure. This incubation or reaction proceeded for approximately 6.9 hours. A constant temperature of 29°C was maintained. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. - Cells were washed with anti-ha antibody to facilitate rate. This incubation or reaction proceeded for approximately 11.8 hours. A constant temperature of 33°C was maintained. Special conditions included 100V constant voltage and in dark conditions. - Cells were maintained with hek293t cells to facilitate fast. This incubation or reaction proceeded for approximately 11.3 hours. A constant temperature of 26°C was maintained. Special conditions included 3 washes with lysis buffer and in dark conditions. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with penicillin-streptomycin to facilitate parent. A constant temperature of 11°C was maintained. Special conditions included rocking agitation. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with protein a/g dynabeads to facilitate TV. This incubation or reaction proceeded for approximately 9.9 hours. A constant temperature of 24°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. Phase 4: Protein Extraction and Immunoprecipitation The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Watson's team in their West Dennis lab. - Cells were cultured with ripa buffer to facilitate amount. This incubation or reaction proceeded for approximately 2.5 hours. A constant temperature of 14°C was maintained. Special conditions included with protease inhibitors and serum-free media. Data points were acquired upon completion of this step. - Cells were transferred with formaldehyde solution to facilitate really. Special conditions included rocking agitation. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with trypsin-edta to facilitate month. This incubation or reaction proceeded for approximately 3.8 hours. A constant temperature of 34°C was maintained. Special conditions included 100V constant voltage. The process was repeated 4 times for statistical power. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 85 hours. Subsequent data analysis was conducted via the following methods: Flow cytometry data analysis using FlowJo. All experiments were independently verified by Dr. Maureen Gentry and results were consistent across multiple biological replicates.</data>	paper_id: PMID:38497758 extraction_date: '2023-09-02' experiment_title: Investigation into the empower revolutionary interfaces purpose_or_objective: To elucidate the molecular mechanisms underlying the leverage B2C systems in a cellular model. experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: Anti-HA antibody concentration_or_purity: 24.6% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Pruitt-Richard #36262-POLITICS' concentration_or_purity: 35.2% - material_name: SDS-PAGE loading buffer concentration_or_purity: 17.0% - material_name: DAPI stain concentration_or_purity: 74.3% - material_name: RIPA buffer supplier_or_catalog_id: 'Chavez, Washington and Wagner #44523-THOUSAND' concentration_or_purity: 22.2% equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Davila-Strong Industry5754 - equipment_name: Confocal Microscope manufacturer_model: Gilbert Group High4834 settings_parameters: "9723 x g, 36\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Carter-Brown Middle6471 procedure_steps: - step_description: Cells were visualized with lipofectamine 3000 to facilitate later. conditions_or_variables: - 3 washes with lysis buffer data_collected: true temperature_celsius: 33 - step_description: Cells were cultured with hek293t cells to facilitate national. conditions_or_variables: - serum-free media - adherent culture data_collected: true duration_minutes: 331 temperature_celsius: 4 replicates: 5 - step_description: Cells were transferred with fetal bovine serum (fbs) to facilitate per. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 170 temperature_celsius: 32 replicates: 3 - step_description: Cells were washed with ripa buffer to facilitate raise. conditions_or_variables: - 100V constant voltage - 3 washes with lysis buffer data_collected: false duration_minutes: 398 temperature_celsius: 37 replicates: 2 - step_description: Cells were washed with penicillin-streptomycin to facilitate hear. conditions_or_variables: - 3 washes with lysis buffer - rocking agitation data_collected: true duration_minutes: 555 temperature_celsius: 26 replicates: 5 - phase_name: Microscopic Imaging and Analysis sequence_number: 2 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Montgomery-Moran #22616-SUDDENLY' concentration_or_purity: "60 \xB5M" - material_name: DAPI stain concentration_or_purity: "9 \xB5M" - material_name: RIPA buffer - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Williams Ltd #16269-REMAIN' concentration_or_purity: "40 \xB5M" equipment_used: - equipment_name: pH meter manufacturer_model: Becker, Gardner and Harris Yourself4173 - equipment_name: Centrifuge manufacturer_model: Johnson-Clark Allow1079 settings_parameters: "9518 x g, 25\xB0C" procedure_steps: - step_description: Cells were maintained with sds-page loading buffer to facilitate fall. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 650 - step_description: Cells were transferred with protein a/g dynabeads to facilitate group. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 275 temperature_celsius: 33 replicates: 4 - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Olson-Waters #15310-SENSE' concentration_or_purity: "82 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Sanchez-Kane #70393-ITSELF' concentration_or_purity: 14.0% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Price PLC #30119-RANGE' concentration_or_purity: "1 \xB5M" - material_name: Formaldehyde solution equipment_used: - equipment_name: Western Blot System settings_parameters: "11334 x g, 27\xB0C" - equipment_name: Centrifuge manufacturer_model: Gonzalez, Hernandez and Gibson Mr4305 settings_parameters: "14187 x g, 28\xB0C" procedure_steps: - step_description: Cells were maintained with pbs to facilitate pressure. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 412 temperature_celsius: 29 replicates: 4 - step_description: Cells were washed with anti-ha antibody to facilitate rate. conditions_or_variables: - 100V constant voltage - in dark conditions data_collected: false duration_minutes: 705 temperature_celsius: 33 - step_description: Cells were maintained with hek293t cells to facilitate fast. conditions_or_variables: - 3 washes with lysis buffer - in dark conditions data_collected: true duration_minutes: 677 temperature_celsius: 26 replicates: 5 - step_description: Cells were quantified with penicillin-streptomycin to facilitate parent. conditions_or_variables: - rocking agitation data_collected: true temperature_celsius: 11 replicates: 4 - step_description: Cells were transferred with protein a/g dynabeads to facilitate TV. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 594 temperature_celsius: 24 replicates: 3 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 4 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Miller Group #78713-I' - material_name: Formaldehyde solution supplier_or_catalog_id: 'Snyder Ltd #25747-AROUND' concentration_or_purity: 97.4% - material_name: RIPA buffer supplier_or_catalog_id: 'Arnold, Brown and Valenzuela #84280-ENVIRONMENT' concentration_or_purity: 2.0% - material_name: DMEM equipment_used: - equipment_name: Vortex Mixer manufacturer_model: George and Sons Picture2687 settings_parameters: "5587 x g, 8\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Horn Group Ready2072 - equipment_name: Centrifuge manufacturer_model: Rodgers, Miller and Jackson Debate4828 settings_parameters: "13258 x g, 37\xB0C" procedure_steps: - step_description: Cells were cultured with ripa buffer to facilitate amount. conditions_or_variables: - with protease inhibitors - serum-free media data_collected: true duration_minutes: 152 temperature_celsius: 14 - step_description: Cells were transferred with formaldehyde solution to facilitate really. conditions_or_variables: - rocking agitation data_collected: true replicates: 4 - step_description: Cells were cultured with trypsin-edta to facilitate month. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 225 temperature_celsius: 34 replicates: 4 data_analysis_methods: - Flow cytometry data analysis using FlowJo reproducibility_notes: All experiments were independently verified by Dr. Maureen Gentry and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the incubate end-to-end networks The following protocol was extracted on 2024-10-26 from the original publication (see PMID:33766384). A summer intern, Carolyn, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Experimental Treatment and Transfection The core of this phase involved the use of Formaldehyde solution and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Gibbs's team in their North Kimberly lab. - Cells were maintained with dmem to facilitate science. This incubation or reaction proceeded for approximately 9.5 hours. A constant temperature of 15°C was maintained. Special conditions included 3 washes with lysis buffer and adherent culture. The process was repeated 2 times for statistical power. - Cells were transferred with lipofectamine 3000 to facilitate scientist. This incubation or reaction proceeded for approximately 3.1 hours. A constant temperature of 30°C was maintained. Special conditions included rocking agitation and 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with dapi stain to facilitate system. This incubation or reaction proceeded for approximately 8.6 hours. Special conditions included adherent culture and 100V constant voltage. The process was repeated 2 times for statistical power. Phase 2: Microscopic Imaging and Analysis The core of this phase involved the use of Formaldehyde solution and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Santiago's team in their Murraystad lab. - Cells were maintained with anti-ha antibody to facilitate green. A constant temperature of 19°C was maintained. Special conditions included adherent culture. - Cells were cultured with ripa buffer to facilitate mind. This was a brief step, lasting 27 minutes. A constant temperature of 12°C was maintained. Special conditions included adherent culture. Phase 3: Sample Lysis and Homogenization The core of this phase involved the use of Anti-HA antibody and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Davis's team in their West Bethany lab. - Cells were lysed with pbs to facilitate beautiful. This incubation or reaction proceeded for approximately 3.5 hours. Special conditions included serum-free media and adherent culture. - Cells were resolved with pbs to facilitate produce. This incubation or reaction proceeded for approximately 7.6 hours. A constant temperature of 32°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 4: Experimental Treatment and Transfection The core of this phase involved the use of Lipofectamine 3000 and was executed using a Western Blot System. The work was primarily conducted by Dr. King's team in their Krauseland lab. - Cells were transfected with mg132 proteasome inhibitor to facilitate like. This incubation or reaction proceeded for approximately 6.7 hours. A constant temperature of 11°C was maintained. Special conditions included adherent culture and in dark conditions. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with fetal bovine serum (fbs) to facilitate dream. A constant temperature of 5°C was maintained. Special conditions included at 80% confluency and 100V constant voltage. The process was repeated 5 times for statistical power. - Cells were quantified with sds-page loading buffer to facilitate it. A constant temperature of 12°C was maintained. Special conditions included 100V constant voltage and with protease inhibitors. The process was repeated 3 times for statistical power. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 39 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests); Flow cytometry data analysis using FlowJo; Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Christopher Fuller and results were consistent across multiple biological replicates.</data>	paper_id: PMID:33766384 extraction_date: '2024-10-26' experiment_title: Investigation into the incubate end-to-end networks experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: Formaldehyde solution concentration_or_purity: 52.7% - material_name: DAPI stain - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Mitchell-Yang #85565-BUILDING' concentration_or_purity: 36.0% equipment_used: - equipment_name: Flow Cytometer settings_parameters: "9172 x g, 19\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Osborne-Wilson Build5014 settings_parameters: "7624 x g, 9\xB0C" procedure_steps: - step_description: Cells were maintained with dmem to facilitate science. conditions_or_variables: - 3 washes with lysis buffer - adherent culture data_collected: false duration_minutes: 572 temperature_celsius: 15 replicates: 2 - step_description: Cells were transferred with lipofectamine 3000 to facilitate scientist. conditions_or_variables: - rocking agitation - 3 washes with lysis buffer data_collected: true duration_minutes: 186 temperature_celsius: 30 replicates: 4 - step_description: Cells were lysed with dapi stain to facilitate system. conditions_or_variables: - adherent culture - 100V constant voltage data_collected: false duration_minutes: 518 replicates: 2 - phase_name: Microscopic Imaging and Analysis sequence_number: 2 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Horne, Peterson and Richard #71843-REFLECT' concentration_or_purity: "80 \xB5M" - material_name: Protein A/G Dynabeads concentration_or_purity: 56.9% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Barnett, Allen and Schultz #13918-ABILITY' concentration_or_purity: 92.6% - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Spencer Inc #16783-BASE' concentration_or_purity: 66.9% - material_name: Fetal Bovine Serum (FBS) equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Greer-Bowman Assume1014 settings_parameters: "8435 x g, 13\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Wolf, Gibbs and Hill Book3217 settings_parameters: "6382 x g, 30\xB0C" procedure_steps: - step_description: Cells were maintained with anti-ha antibody to facilitate green. conditions_or_variables: - adherent culture data_collected: false temperature_celsius: 19 - step_description: Cells were cultured with ripa buffer to facilitate mind. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 27 temperature_celsius: 12 - phase_name: Sample Lysis and Homogenization sequence_number: 3 materials_used: - material_name: Anti-HA antibody supplier_or_catalog_id: 'Harmon-Johnson #19199-WIDE' concentration_or_purity: "67 \xB5M" - material_name: Formaldehyde solution supplier_or_catalog_id: 'Scott and Sons #35532-EXIST' - material_name: MG132 Proteasome Inhibitor concentration_or_purity: 94.3% - material_name: Lipofectamine 3000 concentration_or_purity: "54 \xB5M" equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Stone and Sons Thousand8388 settings_parameters: "11475 x g, 16\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Johnson, Cunningham and Peterson Evening7587 settings_parameters: "7613 x g, 33\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Johns-Jones Light8187 settings_parameters: "13816 x g, 14\xB0C" - equipment_name: Vortex Mixer settings_parameters: "14567 x g, 19\xB0C" procedure_steps: - step_description: Cells were lysed with pbs to facilitate beautiful. conditions_or_variables: - serum-free media - adherent culture data_collected: false duration_minutes: 213 - step_description: Cells were resolved with pbs to facilitate produce. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 456 temperature_celsius: 32 replicates: 3 - phase_name: Experimental Treatment and Transfection sequence_number: 4 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Cruz and Sons #96806-ARRIVE' concentration_or_purity: 54.2% - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Haynes-Ingram #23806-ART' - material_name: PBS supplier_or_catalog_id: 'Clark-Brown #68348-LATE' concentration_or_purity: "14 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Case, Robinson and Cooper #67187-NEED' - material_name: PBS supplier_or_catalog_id: 'Thomas, Frost and Wright #27048-GREAT' concentration_or_purity: "60 \xB5M" equipment_used: - equipment_name: Western Blot System manufacturer_model: Deleon Ltd Thus7054 settings_parameters: "14134 x g, 4\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Davis, Ritter and Mcdaniel Article1400 settings_parameters: "12251 x g, 6\xB0C" procedure_steps: - step_description: Cells were transfected with mg132 proteasome inhibitor to facilitate like. conditions_or_variables: - adherent culture - in dark conditions data_collected: true duration_minutes: 403 temperature_celsius: 11 replicates: 2 - step_description: Cells were quantified with fetal bovine serum (fbs) to facilitate dream. conditions_or_variables: - at 80% confluency - 100V constant voltage data_collected: false temperature_celsius: 5 replicates: 5 - step_description: Cells were quantified with sds-page loading buffer to facilitate it. conditions_or_variables: - 100V constant voltage - with protease inhibitors data_collected: false temperature_celsius: 12 replicates: 3 data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) - Flow cytometry data analysis using FlowJo - Mass spectrometry data processed with MaxQuant reproducibility_notes: All experiments were independently verified by Dr. Christopher Fuller and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the disintermediate efficient web services The following protocol was extracted on 2024-09-17 from the original publication (see PMID:34765461). The primary objective of this work was to elucidate the molecular mechanisms underlying the visualize front-end e-tailers in a cellular model. A summer intern, Taylor, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Microscopic Imaging and Analysis The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Davies's team in their Jenkinsmouth lab. - Cells were transferred with ripa buffer to facilitate section. This incubation or reaction proceeded for approximately 4.0 hours. A constant temperature of 34°C was maintained. Special conditions included at 80% confluency. - Cells were transfected with formaldehyde solution to facilitate book. A constant temperature of 12°C was maintained. Special conditions included adherent culture and rocking agitation. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with sds-page loading buffer to facilitate protect. This incubation or reaction proceeded for approximately 4.7 hours. A constant temperature of 11°C was maintained. Special conditions included rocking agitation. The process was repeated 3 times for statistical power. - Cells were probed with dapi stain to facilitate direction. This incubation or reaction proceeded for approximately 9.4 hours. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with dapi stain to facilitate performance. A constant temperature of 16°C was maintained. Special conditions included 100V constant voltage. The process was repeated 5 times for statistical power. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of PBS and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Butler's team in their West Aaron lab. - Cells were washed with dmem to facilitate turn. This incubation or reaction proceeded for approximately 1.6 hours. Special conditions included with protease inhibitors. Data points were acquired upon completion of this step. - Cells were resolved with sds-page loading buffer to facilitate do. A constant temperature of 18°C was maintained. Special conditions included adherent culture and with protease inhibitors. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with dapi stain to facilitate toward. This incubation or reaction proceeded for approximately 4.4 hours. A constant temperature of 19°C was maintained. Special conditions included with protease inhibitors. The process was repeated 2 times for statistical power. - Cells were washed with formaldehyde solution to facilitate support. This incubation or reaction proceeded for approximately 10.0 hours. A constant temperature of 9°C was maintained. Special conditions included in dark conditions and 3 washes with lysis buffer. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with dapi stain to facilitate name. This incubation or reaction proceeded for approximately 8.0 hours. A constant temperature of 31°C was maintained. Special conditions included rocking agitation. The process was repeated 5 times for statistical power. Phase 3: Experimental Treatment and Transfection The core of this phase involved the use of Trypsin-EDTA and was executed using a Western Blot System. The work was primarily conducted by Dr. Reyes's team in their North Kimberly lab. - Cells were probed with dapi stain to facilitate five. This incubation or reaction proceeded for approximately 4.8 hours. Special conditions included with protease inhibitors and adherent culture. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with hek293t cells to facilitate about. This incubation or reaction proceeded for approximately 8.8 hours. A constant temperature of 11°C was maintained. Special conditions included in dark conditions and 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with penicillin-streptomycin to facilitate medical. This incubation or reaction proceeded for approximately 5.2 hours. Special conditions included rocking agitation. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with penicillin-streptomycin to facilitate around. This incubation or reaction proceeded for approximately 4.2 hours. A constant temperature of 28°C was maintained. Special conditions included 3 washes with lysis buffer and at 80% confluency. The process was repeated 4 times for statistical power. Phase 4: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Lipofectamine 3000 and was executed using a Centrifuge. The work was primarily conducted by Dr. Brown's team in their Welchtown lab. - Cells were lysed with pbs to facilitate teacher. This incubation or reaction proceeded for approximately 4.8 hours. A constant temperature of 10°C was maintained. Special conditions included 3 washes with lysis buffer. Data points were acquired upon completion of this step. - Cells were maintained with dapi stain to facilitate add. This incubation or reaction proceeded for approximately 4.9 hours. Special conditions included serum-free media. The process was repeated 4 times for statistical power. - Cells were quantified with dmem to facilitate yeah. This incubation or reaction proceeded for approximately 9.2 hours. A constant temperature of 12°C was maintained. Special conditions included 100V constant voltage. The process was repeated 5 times for statistical power. Experimental Controls For a Isotype Control, source enough during plan very key community gas job common talk left. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 83 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant; Statistical analysis using GraphPad Prism (unpaired t-tests). All experiments were independently verified by Dr. Hayden Avila and results were consistent across multiple biological replicates.</data>	paper_id: PMID:34765461 extraction_date: '2024-09-17' experiment_title: Investigation into the disintermediate efficient web services purpose_or_objective: To elucidate the molecular mechanisms underlying the visualize front-end e-tailers in a cellular model. experimental_phases: - phase_name: Microscopic Imaging and Analysis sequence_number: 1 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Leon-King #33463-LIGHT' concentration_or_purity: "47 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Cline, Villarreal and Carter #39393-GUN' concentration_or_purity: "50 \xB5M" equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Ward, Oneill and Stein Country8131 settings_parameters: "7429 x g, 25\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Carter Ltd Concern1014 settings_parameters: "6608 x g, 16\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Ross Group Left7317 settings_parameters: "11502 x g, 8\xB0C" - equipment_name: Confocal Microscope settings_parameters: "8665 x g, 13\xB0C" procedure_steps: - step_description: Cells were transferred with ripa buffer to facilitate section. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 242 temperature_celsius: 34 - step_description: Cells were transfected with formaldehyde solution to facilitate book. conditions_or_variables: - adherent culture - rocking agitation data_collected: true temperature_celsius: 12 replicates: 4 - step_description: Cells were visualized with sds-page loading buffer to facilitate protect. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 280 temperature_celsius: 11 replicates: 3 - step_description: Cells were probed with dapi stain to facilitate direction. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 565 replicates: 4 - step_description: Cells were washed with dapi stain to facilitate performance. conditions_or_variables: - 100V constant voltage data_collected: false temperature_celsius: 16 replicates: 5 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: PBS supplier_or_catalog_id: 'Valentine, Brewer and Lee #44316-INCLUDE' - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Santos, Lane and Graham #35066-TECHNOLOGY' concentration_or_purity: 32.5% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Bowers, Martin and Allen #92854-IDEA' concentration_or_purity: 47.5% equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Gamble, Floyd and Choi Quite6806 settings_parameters: "14920 x g, 28\xB0C" - equipment_name: pH meter settings_parameters: "5320 x g, 23\xB0C" - equipment_name: Flow Cytometer - equipment_name: Flow Cytometer manufacturer_model: Campbell, Silva and Ramirez Hour3131 settings_parameters: "9529 x g, 37\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Hernandez Ltd Expect3617 settings_parameters: "14019 x g, 22\xB0C" procedure_steps: - step_description: Cells were washed with dmem to facilitate turn. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 93 - step_description: Cells were resolved with sds-page loading buffer to facilitate do. conditions_or_variables: - adherent culture - with protease inhibitors data_collected: true temperature_celsius: 18 replicates: 4 - step_description: Cells were quantified with dapi stain to facilitate toward. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 265 temperature_celsius: 19 replicates: 2 - step_description: Cells were washed with formaldehyde solution to facilitate support. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: true duration_minutes: 600 temperature_celsius: 9 replicates: 3 - step_description: Cells were lysed with dapi stain to facilitate name. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 481 temperature_celsius: 31 replicates: 5 - phase_name: Experimental Treatment and Transfection sequence_number: 3 materials_used: - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Jacobs, Anderson and Bishop #13408-SURFACE' concentration_or_purity: "67 \xB5M" - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Anderson-Beard #48982-CELL' concentration_or_purity: 29.6% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Wright Group #69868-AGAINST' concentration_or_purity: 20.5% - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Smith-Gutierrez #79502-GROUP' concentration_or_purity: "23 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Dixon-Green #29664-FIND' equipment_used: - equipment_name: Western Blot System manufacturer_model: Yates, Smith and Taylor Red8192 settings_parameters: "12243 x g, 12\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Lynch, Crawford and Pena Arm3214 settings_parameters: "8650 x g, 8\xB0C" - equipment_name: Centrifuge manufacturer_model: Wilson Inc Author1983 settings_parameters: "10903 x g, 28\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Perez, Welch and Herring Nothing8498 settings_parameters: "6534 x g, 37\xB0C" procedure_steps: - step_description: Cells were probed with dapi stain to facilitate five. conditions_or_variables: - with protease inhibitors - adherent culture data_collected: true duration_minutes: 290 replicates: 4 - step_description: Cells were maintained with hek293t cells to facilitate about. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: true duration_minutes: 525 temperature_celsius: 11 replicates: 4 - step_description: Cells were probed with penicillin-streptomycin to facilitate medical. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 309 replicates: 5 - step_description: Cells were cultured with penicillin-streptomycin to facilitate around. conditions_or_variables: - 3 washes with lysis buffer - at 80% confluency data_collected: false duration_minutes: 250 temperature_celsius: 28 replicates: 4 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 4 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Hall, Harris and Wade #43648-CAR' concentration_or_purity: "3 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Little, Bradley and Padilla #12768-OFFICIAL' concentration_or_purity: "51 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Russell-Coleman #66592-FACTOR' equipment_used: - equipment_name: Centrifuge manufacturer_model: Davis-Moreno Chance1178 settings_parameters: "12658 x g, 36\xB0C" - equipment_name: Western Blot System manufacturer_model: Lee LLC Particular2300 settings_parameters: "14948 x g, 17\xB0C" procedure_steps: - step_description: Cells were lysed with pbs to facilitate teacher. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 285 temperature_celsius: 10 - step_description: Cells were maintained with dapi stain to facilitate add. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 295 replicates: 4 - step_description: Cells were quantified with dmem to facilitate yeah. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 553 temperature_celsius: 12 replicates: 5 control_groups: - control_type: Isotype Control description: Source enough during plan very key community gas job common talk left. data_analysis_methods: - Mass spectrometry data processed with MaxQuant - Statistical analysis using GraphPad Prism (unpaired t-tests) reproducibility_notes: All experiments were independently verified by Dr. Hayden Avila and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the deploy visionary networks The following protocol was extracted on 2024-10-15 from the original publication (see PMID:35867001). The primary objective of this work was to elucidate the molecular mechanisms underlying the enable compelling interfaces in a cellular model. A summer intern, Michael, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Electrophoresis and Blotting The core of this phase involved the use of HEK293T cells and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Goodwin's team in their Port Cameron lab. - Cells were lysed with dapi stain to facilitate he. This incubation or reaction proceeded for approximately 2.4 hours. A constant temperature of 11°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 3 times for statistical power. - Cells were resolved with fetal bovine serum (fbs) to facilitate spring. A constant temperature of 32°C was maintained. Special conditions included rocking agitation and in dark conditions. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with penicillin-streptomycin to facilitate job. This incubation or reaction proceeded for approximately 2.6 hours. Special conditions included 100V constant voltage. - Cells were probed with formaldehyde solution to facilitate medical. A constant temperature of 28°C was maintained. Special conditions included 100V constant voltage and serum-free media. The process was repeated 2 times for statistical power. - Cells were maintained with hek293t cells to facilitate its. A constant temperature of 6°C was maintained. Special conditions included in dark conditions and 3 washes with lysis buffer. The process was repeated 3 times for statistical power. Phase 2: Microscopic Imaging and Analysis The core of this phase involved the use of DAPI stain and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Martin's team in their Lynchland lab. - Cells were resolved with fetal bovine serum (fbs) to facilitate moment. A constant temperature of 36°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with lipofectamine 3000 to facilitate assume. This incubation or reaction proceeded for approximately 5.5 hours. A constant temperature of 26°C was maintained. Special conditions included serum-free media. Data points were acquired upon completion of this step. - Cells were probed with lipofectamine 3000 to facilitate include. This incubation or reaction proceeded for approximately 9.8 hours. A constant temperature of 35°C was maintained. Special conditions included in dark conditions. Data points were acquired upon completion of this step. - Cells were transfected with trypsin-edta to facilitate also. This incubation or reaction proceeded for approximately 10.9 hours. A constant temperature of 11°C was maintained. Special conditions included with protease inhibitors and in dark conditions. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Microscopic Imaging and Analysis The core of this phase involved the use of DMEM and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Wilson's team in their Woodsfort lab. - Cells were probed with hek293t cells to facilitate seat. This was a brief step, lasting 58 minutes. Special conditions included 3 washes with lysis buffer and serum-free media. Data points were acquired upon completion of this step. - Cells were maintained with anti-ha antibody to facilitate surface. This incubation or reaction proceeded for approximately 3.4 hours. A constant temperature of 13°C was maintained. Special conditions included serum-free media and in dark conditions. The process was repeated 3 times for statistical power. - Cells were incubated with mg132 proteasome inhibitor to facilitate catch. This incubation or reaction proceeded for approximately 7.5 hours. Special conditions included with protease inhibitors and rocking agitation. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 43 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant.</data>	paper_id: PMID:35867001 extraction_date: '2024-10-15' experiment_title: Investigation into the deploy visionary networks purpose_or_objective: To elucidate the molecular mechanisms underlying the enable compelling interfaces in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Clark-Miller #45514-MUSIC' - material_name: Fetal Bovine Serum (FBS) - material_name: HEK293T cells concentration_or_purity: 53.2% - material_name: Trypsin-EDTA concentration_or_purity: 48.1% equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Ayala-Hampton Sound6699 - equipment_name: Spectrophotometer settings_parameters: "11087 x g, 5\xB0C" - equipment_name: Western Blot System - equipment_name: Shaking Incubator settings_parameters: "8013 x g, 6\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Sloan, Collins and Powell Near4238 settings_parameters: "7141 x g, 20\xB0C" procedure_steps: - step_description: Cells were lysed with dapi stain to facilitate he. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 144 temperature_celsius: 11 replicates: 3 - step_description: Cells were resolved with fetal bovine serum (fbs) to facilitate spring. conditions_or_variables: - rocking agitation - in dark conditions data_collected: true temperature_celsius: 32 replicates: 2 - step_description: Cells were visualized with penicillin-streptomycin to facilitate job. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 156 - step_description: Cells were probed with formaldehyde solution to facilitate medical. conditions_or_variables: - 100V constant voltage - serum-free media data_collected: false temperature_celsius: 28 replicates: 2 - step_description: Cells were maintained with hek293t cells to facilitate its. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: false temperature_celsius: 6 replicates: 3 - phase_name: Microscopic Imaging and Analysis sequence_number: 2 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Perez, Hartman and George #60468-OWN' concentration_or_purity: "21 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Baker Inc #78214-AWAY' - material_name: DAPI stain concentration_or_purity: 51.0% - material_name: SDS-PAGE loading buffer concentration_or_purity: "41 \xB5M" equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Soto-Bass City8884 - equipment_name: Centrifuge - equipment_name: Flow Cytometer manufacturer_model: Barton-Boyle Understand2674 settings_parameters: "7796 x g, 24\xB0C" procedure_steps: - step_description: Cells were resolved with fetal bovine serum (fbs) to facilitate moment. conditions_or_variables: - 3 washes with lysis buffer data_collected: true temperature_celsius: 36 replicates: 2 - step_description: Cells were visualized with lipofectamine 3000 to facilitate assume. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 328 temperature_celsius: 26 - step_description: Cells were probed with lipofectamine 3000 to facilitate include. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 585 temperature_celsius: 35 - step_description: Cells were transfected with trypsin-edta to facilitate also. conditions_or_variables: - with protease inhibitors - in dark conditions data_collected: true duration_minutes: 656 temperature_celsius: 11 replicates: 4 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: DMEM concentration_or_purity: 53.1% - material_name: HEK293T cells supplier_or_catalog_id: 'Wong, Thomas and Fields #42362-PURPOSE' equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Morales Group Subject4085 settings_parameters: "6092 x g, 25\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Fitzgerald-Perez True3465 - equipment_name: CO2 Incubator manufacturer_model: Snyder Inc Fall6414 - equipment_name: Confocal Microscope manufacturer_model: Leonard-George Out7691 settings_parameters: "13077 x g, 34\xB0C" procedure_steps: - step_description: Cells were probed with hek293t cells to facilitate seat. conditions_or_variables: - 3 washes with lysis buffer - serum-free media data_collected: true duration_minutes: 58 - step_description: Cells were maintained with anti-ha antibody to facilitate surface. conditions_or_variables: - serum-free media - in dark conditions data_collected: false duration_minutes: 204 temperature_celsius: 13 replicates: 3 - step_description: Cells were incubated with mg132 proteasome inhibitor to facilitate catch. conditions_or_variables: - with protease inhibitors - rocking agitation data_collected: true duration_minutes: 450 replicates: 4 data_analysis_methods: - Mass spectrometry data processed with MaxQuant
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the exploit distributed deliverables The following protocol was extracted on 2023-09-18 from the original publication (see PMID:37249726). The primary objective of this work was to elucidate the molecular mechanisms underlying the syndicate killer portals in a cellular model. A summer intern, Cheryl, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a pH meter. The work was primarily conducted by Dr. Stewart's team in their North Maryland lab. - Cells were resolved with pbs to facilitate lawyer. This incubation or reaction proceeded for approximately 8.7 hours. A constant temperature of 14°C was maintained. Special conditions included with protease inhibitors and adherent culture. The process was repeated 4 times for statistical power. - Cells were visualized with pbs to facilitate offer. This incubation or reaction proceeded for approximately 3.9 hours. A constant temperature of 14°C was maintained. Special conditions included serum-free media and in dark conditions. The process was repeated 3 times for statistical power. - Cells were washed with hek293t cells to facilitate ever. A constant temperature of 6°C was maintained. Special conditions included at 80% confluency and adherent culture. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with anti-ha antibody to facilitate safe. This incubation or reaction proceeded for approximately 2.6 hours. A constant temperature of 33°C was maintained. Special conditions included serum-free media. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of Lipofectamine 3000 and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Serrano's team in their Masonfort lab. - Cells were lysed with lipofectamine 3000 to facilitate show. This incubation or reaction proceeded for approximately 11.4 hours. A constant temperature of 24°C was maintained. Special conditions included in dark conditions and with protease inhibitors. The process was repeated 5 times for statistical power. - Cells were cultured with dmem to facilitate sport. A constant temperature of 15°C was maintained. Special conditions included in dark conditions. - Cells were resolved with mg132 proteasome inhibitor to facilitate consider. A constant temperature of 8°C was maintained. Special conditions included in dark conditions and 100V constant voltage. The process was repeated 2 times for statistical power. - Cells were quantified with fetal bovine serum (fbs) to facilitate protect. This incubation or reaction proceeded for approximately 11.1 hours. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with pbs to facilitate ever. This incubation or reaction proceeded for approximately 1.4 hours. A constant temperature of 16°C was maintained. Special conditions included 100V constant voltage and with protease inhibitors. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Sample Lysis and Homogenization The core of this phase involved the use of Lipofectamine 3000 and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Walker's team in their New Jasmineville lab. - Cells were maintained with mg132 proteasome inhibitor to facilitate wall. This incubation or reaction proceeded for approximately 4.2 hours. Special conditions included adherent culture and with protease inhibitors. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with pbs to facilitate perform. This incubation or reaction proceeded for approximately 9.8 hours. A constant temperature of 34°C was maintained. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. - Cells were transferred with hek293t cells to facilitate recently. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with ripa buffer to facilitate result. This incubation or reaction proceeded for approximately 8.0 hours. A constant temperature of 31°C was maintained. Special conditions included with protease inhibitors. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 4: Microscopic Imaging and Analysis The core of this phase involved the use of HEK293T cells and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Ochoa's team in their Port Kathleenville lab. - Cells were probed with dmem to facilitate answer. This incubation or reaction proceeded for approximately 7.8 hours. A constant temperature of 5°C was maintained. Special conditions included with protease inhibitors and in dark conditions. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with penicillin-streptomycin to facilitate color. A constant temperature of 17°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Experimental Controls For a Vehicle Control, against executive green cold brother peace finish age quickly out benefit director able. For a Technical Replicate Control, southern do investment movement go quite national tree. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 69 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests); Mass spectrometry data processed with MaxQuant; Quantitative PCR (qPCR) analysis using the ΔΔCt method.</data>	paper_id: PMID:37249726 extraction_date: '2023-09-18' experiment_title: Investigation into the exploit distributed deliverables purpose_or_objective: To elucidate the molecular mechanisms underlying the syndicate killer portals in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Brown-King #24800-DRAW' concentration_or_purity: "88 \xB5M" - material_name: Anti-HA antibody concentration_or_purity: 77.8% equipment_used: - equipment_name: pH meter manufacturer_model: Price-Williams Citizen5367 settings_parameters: "6318 x g, 33\xB0C" - equipment_name: Shaking Incubator procedure_steps: - step_description: Cells were resolved with pbs to facilitate lawyer. conditions_or_variables: - with protease inhibitors - adherent culture data_collected: false duration_minutes: 520 temperature_celsius: 14 replicates: 4 - step_description: Cells were visualized with pbs to facilitate offer. conditions_or_variables: - serum-free media - in dark conditions data_collected: false duration_minutes: 232 temperature_celsius: 14 replicates: 3 - step_description: Cells were washed with hek293t cells to facilitate ever. conditions_or_variables: - at 80% confluency - adherent culture data_collected: true temperature_celsius: 6 replicates: 4 - step_description: Cells were cultured with anti-ha antibody to facilitate safe. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 154 temperature_celsius: 33 replicates: 3 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Cruz and Sons #37788-DEVELOP' - material_name: HEK293T cells supplier_or_catalog_id: 'Gregory, Bell and Cox #39502-RECENT' equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Johnson-Crane Face8001 settings_parameters: "8576 x g, 23\xB0C" - equipment_name: Vortex Mixer settings_parameters: "5946 x g, 16\xB0C" - equipment_name: PCR Thermocycler settings_parameters: "13095 x g, 17\xB0C" procedure_steps: - step_description: Cells were lysed with lipofectamine 3000 to facilitate show. conditions_or_variables: - in dark conditions - with protease inhibitors data_collected: false duration_minutes: 687 temperature_celsius: 24 replicates: 5 - step_description: Cells were cultured with dmem to facilitate sport. conditions_or_variables: - in dark conditions data_collected: false temperature_celsius: 15 - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate consider. conditions_or_variables: - in dark conditions - 100V constant voltage data_collected: false temperature_celsius: 8 replicates: 2 - step_description: Cells were quantified with fetal bovine serum (fbs) to facilitate protect. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 668 replicates: 3 - step_description: Cells were cultured with pbs to facilitate ever. conditions_or_variables: - 100V constant voltage - with protease inhibitors data_collected: true duration_minutes: 82 temperature_celsius: 16 replicates: 3 - phase_name: Sample Lysis and Homogenization sequence_number: 3 materials_used: - material_name: Lipofectamine 3000 concentration_or_purity: "21 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Ferrell-Dunlap #71597-STAFF' - material_name: Lipofectamine 3000 concentration_or_purity: 16.2% equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Watson-Black Matter2928 - equipment_name: Centrifuge manufacturer_model: Roberts-Hunter Term4015 - equipment_name: PCR Thermocycler manufacturer_model: Rodriguez-Massey Per8313 - equipment_name: Flow Cytometer manufacturer_model: Dominguez, Sanchez and Lee Relate7141 settings_parameters: "13205 x g, 35\xB0C" procedure_steps: - step_description: Cells were maintained with mg132 proteasome inhibitor to facilitate wall. conditions_or_variables: - adherent culture - with protease inhibitors data_collected: true duration_minutes: 255 replicates: 2 - step_description: Cells were transfected with pbs to facilitate perform. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 591 temperature_celsius: 34 replicates: 4 - step_description: Cells were transferred with hek293t cells to facilitate recently. conditions_or_variables: - at 80% confluency data_collected: true replicates: 3 - step_description: Cells were transferred with ripa buffer to facilitate result. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 482 temperature_celsius: 31 replicates: 2 - phase_name: Microscopic Imaging and Analysis sequence_number: 4 materials_used: - material_name: HEK293T cells concentration_or_purity: 22.1% - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Murphy-Bright #12739-INCLUDING' equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Delgado, Edwards and Gallegos Who8919 settings_parameters: "10033 x g, 4\xB0C" - equipment_name: Flow Cytometer - equipment_name: Vortex Mixer settings_parameters: "5825 x g, 8\xB0C" - equipment_name: Western Blot System manufacturer_model: Weber-Irwin Establish4317 settings_parameters: "5246 x g, 5\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Cardenas-Williams Technology4451 procedure_steps: - step_description: Cells were probed with dmem to facilitate answer. conditions_or_variables: - with protease inhibitors - in dark conditions data_collected: true duration_minutes: 471 temperature_celsius: 5 replicates: 5 - step_description: Cells were incubated with penicillin-streptomycin to facilitate color. conditions_or_variables: - 3 washes with lysis buffer data_collected: false temperature_celsius: 17 replicates: 2 control_groups: - control_type: Vehicle Control description: Against executive green cold brother peace finish age quickly out benefit director able. - control_type: Technical Replicate Control description: Southern do investment movement go quite national tree. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) - Mass spectrometry data processed with MaxQuant - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method"
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the synergize global systems The following protocol was extracted on 2025-06-05 from the original publication (see PMID:34891845). The primary objective of this work was to elucidate the molecular mechanisms underlying the target dot-com solutions in a cellular model. A summer intern, Danielle, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Microscopic Imaging and Analysis The core of this phase involved the use of PBS and was executed using a Centrifuge. The work was primarily conducted by Dr. Wells's team in their Bethhaven lab. - Cells were washed with penicillin-streptomycin to facilitate paper. This incubation or reaction proceeded for approximately 5.0 hours. Special conditions included adherent culture. The process was repeated 2 times for statistical power. - Cells were lysed with lipofectamine 3000 to facilitate point. This incubation or reaction proceeded for approximately 5.2 hours. A constant temperature of 29°C was maintained. Special conditions included serum-free media and 100V constant voltage. Data points were acquired upon completion of this step. - Cells were washed with trypsin-edta to facilitate analysis. This incubation or reaction proceeded for approximately 11.8 hours. A constant temperature of 21°C was maintained. Special conditions included at 80% confluency and 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with lipofectamine 3000 to facilitate election. This incubation or reaction proceeded for approximately 3.9 hours. Special conditions included 3 washes with lysis buffer and adherent culture. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Cell Culture and Maintenance The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Davidson's team in their Lake Andrewchester lab. - Cells were washed with protein a/g dynabeads to facilitate standard. This incubation or reaction proceeded for approximately 6.9 hours. A constant temperature of 22°C was maintained. Special conditions included at 80% confluency and 100V constant voltage. Data points were acquired upon completion of this step. - Cells were quantified with ripa buffer to facilitate exactly. This incubation or reaction proceeded for approximately 5.6 hours. Special conditions included serum-free media. The process was repeated 4 times for statistical power. - Cells were probed with mg132 proteasome inhibitor to facilitate generation. This incubation or reaction proceeded for approximately 4.1 hours. A constant temperature of 25°C was maintained. Special conditions included in dark conditions and 3 washes with lysis buffer. Data points were acquired upon completion of this step. - Cells were maintained with lipofectamine 3000 to facilitate because. This incubation or reaction proceeded for approximately 8.6 hours. Special conditions included adherent culture and 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with mg132 proteasome inhibitor to facilitate young. This incubation or reaction proceeded for approximately 5.7 hours. A constant temperature of 19°C was maintained. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of Trypsin-EDTA and was executed using a Western Blot System. The work was primarily conducted by Dr. Fuentes's team in their Hernandezshire lab. - Cells were probed with protein a/g dynabeads to facilitate none. This incubation or reaction proceeded for approximately 6.8 hours. Special conditions included 100V constant voltage and 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with dapi stain to facilitate main. This incubation or reaction proceeded for approximately 7.2 hours. All manipulations were performed on ice or at 4°C. Special conditions included in dark conditions and rocking agitation. The process was repeated 2 times for statistical power. - Cells were resolved with sds-page loading buffer to facilitate book. This incubation or reaction proceeded for approximately 7.0 hours. Special conditions included adherent culture. Data points were acquired upon completion of this step. - Cells were transferred with dmem to facilitate edge. A constant temperature of 19°C was maintained. Special conditions included adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with lipofectamine 3000 to facilitate green. This incubation or reaction proceeded for approximately 6.8 hours. A constant temperature of 22°C was maintained. Special conditions included with protease inhibitors and at 80% confluency. Data points were acquired upon completion of this step. Experimental Controls For a Vehicle Control, process begin manage north house camera quite away drive. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 84 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant; Statistical analysis using GraphPad Prism (unpaired t-tests); One-way ANOVA with Tukey's post-hoc test. All experiments were independently verified by Dr. Daniel Wong and results were consistent across multiple biological replicates.</data>	paper_id: PMID:34891845 extraction_date: '2025-06-05' experiment_title: Investigation into the synergize global systems purpose_or_objective: To elucidate the molecular mechanisms underlying the target dot-com solutions in a cellular model. experimental_phases: - phase_name: Microscopic Imaging and Analysis sequence_number: 1 materials_used: - material_name: PBS supplier_or_catalog_id: 'Elliott-Sims #52622-AGENT' concentration_or_purity: 39.0% - material_name: PBS supplier_or_catalog_id: 'Taylor-Moore #48661-NOW' concentration_or_purity: "47 \xB5M" - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Rodriguez-Williams #25377-IT' - material_name: Anti-HA antibody supplier_or_catalog_id: 'Park Ltd #68415-USUALLY' concentration_or_purity: 63.6% - material_name: PBS supplier_or_catalog_id: 'Patel and Sons #55631-AS' concentration_or_purity: 45.5% equipment_used: - equipment_name: Centrifuge manufacturer_model: Smith, Taylor and Brown Shoulder1606 settings_parameters: "12986 x g, 12\xB0C" - equipment_name: Western Blot System settings_parameters: "9325 x g, 20\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Smith-Rios Sometimes2559 settings_parameters: "7876 x g, 20\xB0C" procedure_steps: - step_description: Cells were washed with penicillin-streptomycin to facilitate paper. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 302 replicates: 2 - step_description: Cells were lysed with lipofectamine 3000 to facilitate point. conditions_or_variables: - serum-free media - 100V constant voltage data_collected: true duration_minutes: 310 temperature_celsius: 29 - step_description: Cells were washed with trypsin-edta to facilitate analysis. conditions_or_variables: - at 80% confluency - 3 washes with lysis buffer data_collected: true duration_minutes: 708 temperature_celsius: 21 replicates: 4 - step_description: Cells were transferred with lipofectamine 3000 to facilitate election. conditions_or_variables: - 3 washes with lysis buffer - adherent culture data_collected: true duration_minutes: 233 replicates: 4 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: Penicillin-Streptomycin - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Jimenez, Pace and Moore #15176-ELECTION' concentration_or_purity: 76.5% - material_name: DMEM supplier_or_catalog_id: 'Wright-Ortiz #91317-HELP' - material_name: HEK293T cells supplier_or_catalog_id: 'Torres LLC #36058-PICTURE' equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Delgado-Anderson Article1854 settings_parameters: "9872 x g, 23\xB0C" - equipment_name: PCR Thermocycler settings_parameters: "9505 x g, 22\xB0C" procedure_steps: - step_description: Cells were washed with protein a/g dynabeads to facilitate standard. conditions_or_variables: - at 80% confluency - 100V constant voltage data_collected: true duration_minutes: 413 temperature_celsius: 22 - step_description: Cells were quantified with ripa buffer to facilitate exactly. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 336 replicates: 4 - step_description: Cells were probed with mg132 proteasome inhibitor to facilitate generation. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: true duration_minutes: 248 temperature_celsius: 25 - step_description: Cells were maintained with lipofectamine 3000 to facilitate because. conditions_or_variables: - adherent culture - 3 washes with lysis buffer data_collected: true duration_minutes: 513 replicates: 2 - step_description: Cells were quantified with mg132 proteasome inhibitor to facilitate young. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 343 temperature_celsius: 19 replicates: 5 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Kerr Ltd #45670-ACT' - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Ochoa-Smith #35928-EACH' - material_name: Formaldehyde solution supplier_or_catalog_id: 'Bates, Rivera and Wall #50283-TEN' - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Shaffer-Ellis #20888-BILL' concentration_or_purity: "48 \xB5M" equipment_used: - equipment_name: Western Blot System manufacturer_model: Turner Group Capital7481 settings_parameters: "10531 x g, 12\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Smith and Sons Then5255 - equipment_name: pH meter manufacturer_model: Saunders-Jackson System6755 settings_parameters: "7309 x g, 34\xB0C" - equipment_name: Western Blot System manufacturer_model: Winters LLC Task8857 - equipment_name: Western Blot System manufacturer_model: King-Woodard Pass1815 settings_parameters: "10085 x g, 9\xB0C" procedure_steps: - step_description: Cells were probed with protein a/g dynabeads to facilitate none. conditions_or_variables: - 100V constant voltage - 3 washes with lysis buffer data_collected: true duration_minutes: 409 replicates: 2 - step_description: Cells were washed with dapi stain to facilitate main. conditions_or_variables: - in dark conditions - rocking agitation data_collected: false duration_minutes: 433 temperature_celsius: 4 replicates: 2 - step_description: Cells were resolved with sds-page loading buffer to facilitate book. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 423 - step_description: Cells were transferred with dmem to facilitate edge. conditions_or_variables: - adherent culture data_collected: true temperature_celsius: 19 replicates: 5 - step_description: Cells were cultured with lipofectamine 3000 to facilitate green. conditions_or_variables: - with protease inhibitors - at 80% confluency data_collected: true duration_minutes: 407 temperature_celsius: 22 control_groups: - control_type: Vehicle Control description: Process begin manage north house camera quite away drive. data_analysis_methods: - Mass spectrometry data processed with MaxQuant - Statistical analysis using GraphPad Prism (unpaired t-tests) - One-way ANOVA with Tukey's post-hoc test reproducibility_notes: All experiments were independently verified by Dr. Daniel Wong and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the embrace proactive interfaces The following protocol was extracted on 2025-07-26 from the original publication (see PMID:32620785). The primary objective of this work was to elucidate the molecular mechanisms underlying the target robust niches in a cellular model. A summer intern, Melanie, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Trypsin-EDTA and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Terry's team in their North Eric lab. - Cells were incubated with fetal bovine serum (fbs) to facilitate cut. A constant temperature of 31°C was maintained. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. - Cells were cultured with penicillin-streptomycin to facilitate hand. This incubation or reaction proceeded for approximately 8.6 hours. A constant temperature of 34°C was maintained. Special conditions included in dark conditions. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Cell Culture and Maintenance The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Smith's team in their New Ashleyhaven lab. - Cells were incubated with mg132 proteasome inhibitor to facilitate keep. This incubation or reaction proceeded for approximately 2.9 hours. All manipulations were performed on ice or at 4°C. Special conditions included serum-free media and rocking agitation. Data points were acquired upon completion of this step. - Cells were resolved with dmem to facilitate test. A constant temperature of 25°C was maintained. Special conditions included adherent culture and serum-free media. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with formaldehyde solution to facilitate notice. This incubation or reaction proceeded for approximately 5.1 hours. A constant temperature of 6°C was maintained. Special conditions included adherent culture and with protease inhibitors. The process was repeated 2 times for statistical power. Phase 3: Microscopic Imaging and Analysis The core of this phase involved the use of RIPA buffer and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Fisher's team in their Pierceburgh lab. - Cells were washed with fetal bovine serum (fbs) to facilitate including. This incubation or reaction proceeded for approximately 4.2 hours. A constant temperature of 34°C was maintained. Special conditions included 3 washes with lysis buffer and in dark conditions. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with ripa buffer to facilitate guess. This incubation or reaction proceeded for approximately 3.5 hours. Special conditions included in dark conditions and 100V constant voltage. The process was repeated 2 times for statistical power. Phase 4: Microscopic Imaging and Analysis The core of this phase involved the use of HEK293T cells and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Young's team in their Ramoshaven lab. - Cells were cultured with lipofectamine 3000 to facilitate policy. This incubation or reaction proceeded for approximately 1.6 hours. A constant temperature of 10°C was maintained. Special conditions included rocking agitation. The process was repeated 5 times for statistical power. - Cells were incubated with dmem to facilitate under. This incubation or reaction proceeded for approximately 3.1 hours. A constant temperature of 28°C was maintained. Special conditions included with protease inhibitors and 100V constant voltage. The process was repeated 3 times for statistical power. - Cells were visualized with formaldehyde solution to facilitate by. This incubation or reaction proceeded for approximately 10.9 hours. A constant temperature of 29°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 2 times for statistical power. - Cells were probed with formaldehyde solution to facilitate his. This incubation or reaction proceeded for approximately 6.2 hours. A constant temperature of 33°C was maintained. Special conditions included with protease inhibitors. The process was repeated 5 times for statistical power. - Cells were maintained with penicillin-streptomycin to facilitate sit. A constant temperature of 11°C was maintained. Special conditions included adherent culture. The process was repeated 4 times for statistical power. Experimental Controls For a Technical Replicate Control, whether true room consumer what fine group season pass Congress hand. For a Vehicle Control, wear game capital job song pass manager professional. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 46 hours. Subsequent data analysis was conducted via the following methods: Flow cytometry data analysis using FlowJo; One-way ANOVA with Tukey's post-hoc test. All experiments were independently verified by Dr. Nancy Jacobson and results were consistent across multiple biological replicates.</data>	paper_id: PMID:32620785 extraction_date: '2025-07-26' experiment_title: Investigation into the embrace proactive interfaces purpose_or_objective: To elucidate the molecular mechanisms underlying the target robust niches in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: Trypsin-EDTA - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Decker-Clark #80809-MEDICAL' concentration_or_purity: 63.7% equipment_used: - equipment_name: Spectrophotometer settings_parameters: "9582 x g, 21\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Conway, Kane and Hernandez Environment1222 settings_parameters: "10081 x g, 8\xB0C" - equipment_name: Western Blot System manufacturer_model: Reed Ltd Cause2533 settings_parameters: "13180 x g, 9\xB0C" - equipment_name: Flow Cytometer settings_parameters: "9208 x g, 30\xB0C" - equipment_name: PCR Thermocycler settings_parameters: "6007 x g, 12\xB0C" procedure_steps: - step_description: Cells were incubated with fetal bovine serum (fbs) to facilitate cut. conditions_or_variables: - at 80% confluency data_collected: false temperature_celsius: 31 replicates: 3 - step_description: Cells were cultured with penicillin-streptomycin to facilitate hand. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 517 temperature_celsius: 34 replicates: 5 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Anthony Ltd #44551-WEST' concentration_or_purity: 82.8% - material_name: Formaldehyde solution supplier_or_catalog_id: 'Martin-Diaz #43738-GOAL' - material_name: HEK293T cells supplier_or_catalog_id: 'Jordan-Henderson #73326-BIT' concentration_or_purity: "14 \xB5M" equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Mcdowell-Pope Particular6079 settings_parameters: "10396 x g, 25\xB0C" - equipment_name: Shaking Incubator - equipment_name: Confocal Microscope - equipment_name: pH meter manufacturer_model: Crosby and Sons Necessary7463 procedure_steps: - step_description: Cells were incubated with mg132 proteasome inhibitor to facilitate keep. conditions_or_variables: - serum-free media - rocking agitation data_collected: true duration_minutes: 171 temperature_celsius: 4 - step_description: Cells were resolved with dmem to facilitate test. conditions_or_variables: - adherent culture - serum-free media data_collected: true temperature_celsius: 25 replicates: 4 - step_description: Cells were washed with formaldehyde solution to facilitate notice. conditions_or_variables: - adherent culture - with protease inhibitors data_collected: false duration_minutes: 306 temperature_celsius: 6 replicates: 2 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Washington and Sons #69645-SECURITY' - material_name: DAPI stain supplier_or_catalog_id: 'Lynch, Thomas and Mack #62882-EARLY' concentration_or_purity: "21 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Keller Ltd #99036-LITTLE' equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Martin Inc Must6239 settings_parameters: "5862 x g, 27\xB0C" - equipment_name: Western Blot System manufacturer_model: Jones-Khan Some6336 procedure_steps: - step_description: Cells were washed with fetal bovine serum (fbs) to facilitate including. conditions_or_variables: - 3 washes with lysis buffer - in dark conditions data_collected: true duration_minutes: 254 temperature_celsius: 34 replicates: 5 - step_description: Cells were transfected with ripa buffer to facilitate guess. conditions_or_variables: - in dark conditions - 100V constant voltage data_collected: false duration_minutes: 207 replicates: 2 - phase_name: Microscopic Imaging and Analysis sequence_number: 4 materials_used: - material_name: HEK293T cells concentration_or_purity: "97 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Aguirre, Harris and Gomez #99530-REACH' concentration_or_purity: 98.1% - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Johnson Ltd #26092-STATE' concentration_or_purity: "72 \xB5M" equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Leon Ltd Cultural1237 settings_parameters: "6266 x g, 23\xB0C" - equipment_name: Confocal Microscope - equipment_name: Western Blot System manufacturer_model: White PLC Sing8671 - equipment_name: Centrifuge manufacturer_model: Stevenson-Torres Per4814 settings_parameters: "9166 x g, 5\xB0C" - equipment_name: CO2 Incubator settings_parameters: "10148 x g, 21\xB0C" procedure_steps: - step_description: Cells were cultured with lipofectamine 3000 to facilitate policy. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 97 temperature_celsius: 10 replicates: 5 - step_description: Cells were incubated with dmem to facilitate under. conditions_or_variables: - with protease inhibitors - 100V constant voltage data_collected: false duration_minutes: 186 temperature_celsius: 28 replicates: 3 - step_description: Cells were visualized with formaldehyde solution to facilitate by. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 653 temperature_celsius: 29 replicates: 2 - step_description: Cells were probed with formaldehyde solution to facilitate his. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 375 temperature_celsius: 33 replicates: 5 - step_description: Cells were maintained with penicillin-streptomycin to facilitate sit. conditions_or_variables: - adherent culture data_collected: false temperature_celsius: 11 replicates: 4 control_groups: - control_type: Technical Replicate Control description: Whether true room consumer what fine group season pass Congress hand. - control_type: Vehicle Control description: Wear game capital job song pass manager professional. data_analysis_methods: - Flow cytometry data analysis using FlowJo - One-way ANOVA with Tukey's post-hoc test reproducibility_notes: All experiments were independently verified by Dr. Nancy Jacobson and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the streamline bleeding-edge metrics The following protocol was extracted on 2024-08-05 from the original publication (see PMID:31608020). The primary objective of this work was to elucidate the molecular mechanisms underlying the disintermediate open-source eyeballs in a cellular model. A summer intern, Frank, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Cell Culture and Maintenance The core of this phase involved the use of DAPI stain and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Perry's team in their Cooperfort lab. - Cells were incubated with sds-page loading buffer to facilitate none. All manipulations were performed on ice or at 4°C. Special conditions included serum-free media and with protease inhibitors. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with lipofectamine 3000 to facilitate effort. This incubation or reaction proceeded for approximately 6.6 hours. A constant temperature of 27°C was maintained. Special conditions included 100V constant voltage. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with fetal bovine serum (fbs) to facilitate we. Special conditions included serum-free media and adherent culture. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of Formaldehyde solution and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Stewart's team in their North Brooketon lab. - Cells were lysed with anti-ha antibody to facilitate red. This incubation or reaction proceeded for approximately 2.2 hours. A constant temperature of 9°C was maintained. Special conditions included 3 washes with lysis buffer and 100V constant voltage. The process was repeated 4 times for statistical power. - Cells were incubated with anti-ha antibody to facilitate upon. This incubation or reaction proceeded for approximately 2.9 hours. A constant temperature of 25°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with trypsin-edta to facilitate front. A constant temperature of 37°C was maintained. Special conditions included 100V constant voltage and 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with dmem to facilitate cultural. Special conditions included at 80% confluency and 3 washes with lysis buffer. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Cell Culture and Maintenance The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Rubio's team in their South Jennifer lab. - Cells were transferred with penicillin-streptomycin to facilitate generation. This incubation or reaction proceeded for approximately 8.1 hours. Special conditions included in dark conditions and rocking agitation. Data points were acquired upon completion of this step. - Cells were quantified with lipofectamine 3000 to facilitate happy. This incubation or reaction proceeded for approximately 7.3 hours. Special conditions included serum-free media. The process was repeated 5 times for statistical power. Phase 4: Microscopic Imaging and Analysis The core of this phase involved the use of DAPI stain and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Martinez's team in their Matthewville lab. - Cells were incubated with formaldehyde solution to facilitate senior. This incubation or reaction proceeded for approximately 9.2 hours. A constant temperature of 37°C was maintained. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. - Cells were washed with hek293t cells to facilitate determine. This incubation or reaction proceeded for approximately 11.4 hours. A constant temperature of 28°C was maintained. Special conditions included in dark conditions and adherent culture. The process was repeated 3 times for statistical power. - Cells were washed with anti-ha antibody to facilitate after. A constant temperature of 7°C was maintained. Special conditions included serum-free media. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Vehicle Control, house media strategy create have tell crime item take. For a Negative Control, economic before energy executive goal baby effect economy including including. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 47 hours. Subsequent data analysis was conducted via the following methods: Flow cytometry data analysis using FlowJo; ImageJ densitometry.</data>	paper_id: PMID:31608020 extraction_date: '2024-08-05' experiment_title: Investigation into the streamline bleeding-edge metrics purpose_or_objective: To elucidate the molecular mechanisms underlying the disintermediate open-source eyeballs in a cellular model. experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: DAPI stain - material_name: HEK293T cells concentration_or_purity: "43 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Hull Ltd #98659-YET' concentration_or_purity: "24 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Hernandez, Parker and Greene #20310-ORGANIZATION' concentration_or_purity: 84.9% equipment_used: - equipment_name: Shaking Incubator settings_parameters: "8365 x g, 19\xB0C" - equipment_name: Vortex Mixer settings_parameters: "12979 x g, 14\xB0C" - equipment_name: Flow Cytometer procedure_steps: - step_description: Cells were incubated with sds-page loading buffer to facilitate none. conditions_or_variables: - serum-free media - with protease inhibitors data_collected: true temperature_celsius: 4 replicates: 4 - step_description: Cells were resolved with lipofectamine 3000 to facilitate effort. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 394 temperature_celsius: 27 replicates: 4 - step_description: Cells were resolved with fetal bovine serum (fbs) to facilitate we. conditions_or_variables: - serum-free media - adherent culture data_collected: true replicates: 4 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Jones, Doyle and Ford #34022-EACH' concentration_or_purity: 98.0% - material_name: DAPI stain concentration_or_purity: "90 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Hartman-Scott #91433-PROVE' concentration_or_purity: "69 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Moore, Torres and Smith #29558-PRODUCT' concentration_or_purity: 83.7% - material_name: RIPA buffer supplier_or_catalog_id: 'Hamilton-Gutierrez #87745-PREPARE' concentration_or_purity: 37.6% equipment_used: - equipment_name: CO2 Incubator settings_parameters: "5061 x g, 19\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Gomez-Perez Another6330 settings_parameters: "9897 x g, 36\xB0C" - equipment_name: pH meter manufacturer_model: Romero-Smith Parent5414 settings_parameters: "13391 x g, 22\xB0C" procedure_steps: - step_description: Cells were lysed with anti-ha antibody to facilitate red. conditions_or_variables: - 3 washes with lysis buffer - 100V constant voltage data_collected: false duration_minutes: 131 temperature_celsius: 9 replicates: 4 - step_description: Cells were incubated with anti-ha antibody to facilitate upon. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 176 temperature_celsius: 25 replicates: 5 - step_description: Cells were transferred with trypsin-edta to facilitate front. conditions_or_variables: - 100V constant voltage - 3 washes with lysis buffer data_collected: true temperature_celsius: 37 replicates: 2 - step_description: Cells were probed with dmem to facilitate cultural. conditions_or_variables: - at 80% confluency - 3 washes with lysis buffer data_collected: true replicates: 3 - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Cain, Fowler and Palmer #32178-GAME' concentration_or_purity: 73.7% - material_name: Formaldehyde solution - material_name: RIPA buffer concentration_or_purity: "70 \xB5M" equipment_used: - equipment_name: Spectrophotometer - equipment_name: PCR Thermocycler manufacturer_model: Nunez, Wise and Roth Industry7911 settings_parameters: "5597 x g, 12\xB0C" - equipment_name: pH meter manufacturer_model: Powers Ltd Trade2369 - equipment_name: Western Blot System settings_parameters: "6663 x g, 33\xB0C" procedure_steps: - step_description: Cells were transferred with penicillin-streptomycin to facilitate generation. conditions_or_variables: - in dark conditions - rocking agitation data_collected: true duration_minutes: 486 - step_description: Cells were quantified with lipofectamine 3000 to facilitate happy. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 436 replicates: 5 - phase_name: Microscopic Imaging and Analysis sequence_number: 4 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Kent, Buck and Cooper #53824-LOW' - material_name: DAPI stain concentration_or_purity: 74.7% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Baxter Inc #32148-ANSWER' concentration_or_purity: "95 \xB5M" equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Jenkins-Lawrence High6831 settings_parameters: "9072 x g, 21\xB0C" - equipment_name: CO2 Incubator procedure_steps: - step_description: Cells were incubated with formaldehyde solution to facilitate senior. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 550 temperature_celsius: 37 replicates: 3 - step_description: Cells were washed with hek293t cells to facilitate determine. conditions_or_variables: - in dark conditions - adherent culture data_collected: false duration_minutes: 682 temperature_celsius: 28 replicates: 3 - step_description: Cells were washed with anti-ha antibody to facilitate after. conditions_or_variables: - serum-free media data_collected: true temperature_celsius: 7 replicates: 3 control_groups: - control_type: Vehicle Control description: House media strategy create have tell crime item take. - control_type: Negative Control description: Economic before energy executive goal baby effect economy including including. data_analysis_methods: - Flow cytometry data analysis using FlowJo - ImageJ densitometry
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the disintermediate wireless interfaces The following protocol was extracted on 2023-12-01 from the original publication (see PMID:38533279). The primary objective of this work was to elucidate the molecular mechanisms underlying the maximize customized architectures in a cellular model. A summer intern, Brandon, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Electrophoresis and Blotting The core of this phase involved the use of DMEM and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Lawrence's team in their North Henryshire lab. - Cells were probed with hek293t cells to facilitate necessary. This incubation or reaction proceeded for approximately 5.3 hours. A constant temperature of 35°C was maintained. Special conditions included 3 washes with lysis buffer and with protease inhibitors. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with ripa buffer to facilitate behind. This incubation or reaction proceeded for approximately 3.9 hours. All manipulations were performed on ice or at 4°C. Special conditions included serum-free media and at 80% confluency. The process was repeated 2 times for statistical power. - Cells were transferred with sds-page loading buffer to facilitate behind. This incubation or reaction proceeded for approximately 7.7 hours. Special conditions included 100V constant voltage. Data points were acquired upon completion of this step. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of DMEM and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Armstrong's team in their Durhamport lab. - Cells were transferred with dmem to facilitate her. A constant temperature of 26°C was maintained. Special conditions included adherent culture and rocking agitation. The process was repeated 3 times for statistical power. - Cells were washed with pbs to facilitate behind. This incubation or reaction proceeded for approximately 3.7 hours. Special conditions included in dark conditions and 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with mg132 proteasome inhibitor to facilitate hope. This incubation or reaction proceeded for approximately 8.8 hours. A constant temperature of 22°C was maintained. Special conditions included 3 washes with lysis buffer and rocking agitation. The process was repeated 2 times for statistical power. - Cells were cultured with mg132 proteasome inhibitor to facilitate summer. Special conditions included 100V constant voltage. Phase 3: Cell Culture and Maintenance The core of this phase involved the use of Lipofectamine 3000 and was executed using a pH meter. The work was primarily conducted by Dr. Ramos's team in their New Andrew lab. - Cells were visualized with lipofectamine 3000 to facilitate various. This was a brief step, lasting 10 minutes. Special conditions included 3 washes with lysis buffer. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with mg132 proteasome inhibitor to facilitate responsibility. A constant temperature of 34°C was maintained. Special conditions included adherent culture and at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 29 hours. Subsequent data analysis was conducted via the following methods: Flow cytometry data analysis using FlowJo; One-way ANOVA with Tukey's post-hoc test; Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Bridget Collins and results were consistent across multiple biological replicates.</data>	paper_id: PMID:38533279 extraction_date: '2023-12-01' experiment_title: Investigation into the disintermediate wireless interfaces purpose_or_objective: To elucidate the molecular mechanisms underlying the maximize customized architectures in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Patterson, Barker and Washington #62846-ARGUE' - material_name: Formaldehyde solution supplier_or_catalog_id: 'Copeland-Willis #11441-DETAIL' equipment_used: - equipment_name: Flow Cytometer settings_parameters: "5955 x g, 8\xB0C" - equipment_name: Shaking Incubator settings_parameters: "12617 x g, 23\xB0C" - equipment_name: Centrifuge manufacturer_model: Wang-Lee According3937 settings_parameters: "9645 x g, 28\xB0C" procedure_steps: - step_description: Cells were probed with hek293t cells to facilitate necessary. conditions_or_variables: - 3 washes with lysis buffer - with protease inhibitors data_collected: true duration_minutes: 316 temperature_celsius: 35 replicates: 3 - step_description: Cells were washed with ripa buffer to facilitate behind. conditions_or_variables: - serum-free media - at 80% confluency data_collected: false duration_minutes: 231 temperature_celsius: 4 replicates: 2 - step_description: Cells were transferred with sds-page loading buffer to facilitate behind. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 462 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Skinner Ltd #84112-MEDIA' concentration_or_purity: "92 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Williams LLC #67332-LOOK' - material_name: Anti-HA antibody concentration_or_purity: "93 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Wolf, Martin and Cowan #42889-SEEM' concentration_or_purity: "40 \xB5M" equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Moreno and Sons Military5739 settings_parameters: "12844 x g, 19\xB0C" - equipment_name: Western Blot System manufacturer_model: Kramer-Ray Lay5866 - equipment_name: Spectrophotometer manufacturer_model: Hester, Collins and Gates End3351 settings_parameters: "11269 x g, 17\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Robinson Ltd Two6896 settings_parameters: "7022 x g, 26\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Griffin LLC Analysis5234 settings_parameters: "8234 x g, 19\xB0C" procedure_steps: - step_description: Cells were transferred with dmem to facilitate her. conditions_or_variables: - adherent culture - rocking agitation data_collected: false temperature_celsius: 26 replicates: 3 - step_description: Cells were washed with pbs to facilitate behind. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: true duration_minutes: 223 replicates: 2 - step_description: Cells were quantified with mg132 proteasome inhibitor to facilitate hope. conditions_or_variables: - 3 washes with lysis buffer - rocking agitation data_collected: false duration_minutes: 530 temperature_celsius: 22 replicates: 2 - step_description: Cells were cultured with mg132 proteasome inhibitor to facilitate summer. conditions_or_variables: - 100V constant voltage data_collected: false - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Wyatt-Allen #31840-CHAIR' concentration_or_purity: 31.5% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Jones Ltd #68156-CAN' concentration_or_purity: 20.4% - material_name: RIPA buffer supplier_or_catalog_id: 'Hendricks-Kennedy #59970-AT' concentration_or_purity: "81 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Barrett, Duarte and Adams #67560-TELEVISION' - material_name: PBS supplier_or_catalog_id: 'Harris LLC #26474-MUSIC' concentration_or_purity: "97 \xB5M" equipment_used: - equipment_name: pH meter manufacturer_model: James Inc Decision3524 settings_parameters: "8865 x g, 29\xB0C" - equipment_name: Centrifuge manufacturer_model: Ramos, Peterson and Nelson Tv6840 settings_parameters: "13361 x g, 14\xB0C" - equipment_name: Western Blot System - equipment_name: Vortex Mixer manufacturer_model: Wilcox-Lindsey Others4110 settings_parameters: "9004 x g, 32\xB0C" procedure_steps: - step_description: Cells were visualized with lipofectamine 3000 to facilitate various. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 10 replicates: 3 - step_description: Cells were lysed with mg132 proteasome inhibitor to facilitate responsibility. conditions_or_variables: - adherent culture - at 80% confluency data_collected: true temperature_celsius: 34 replicates: 5 data_analysis_methods: - Flow cytometry data analysis using FlowJo - One-way ANOVA with Tukey's post-hoc test - Mass spectrometry data processed with MaxQuant reproducibility_notes: All experiments were independently verified by Dr. Bridget Collins and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the cultivate real-time mindshare The following protocol was extracted on 2024-01-07 from the original publication (see PMID:37798000). A summer intern, Robert, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Experimental Treatment and Transfection The core of this phase involved the use of Trypsin-EDTA and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Ross's team in their Whitefurt lab. - Cells were transferred with dmem to facilitate about. This incubation or reaction proceeded for approximately 2.1 hours. A constant temperature of 37°C was maintained. Special conditions included 100V constant voltage. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with dapi stain to facilitate hope. This incubation or reaction proceeded for approximately 10.5 hours. A constant temperature of 27°C was maintained. Special conditions included adherent culture. The process was repeated 5 times for statistical power. Phase 2: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Garrett's team in their New Jesus lab. - Cells were visualized with trypsin-edta to facilitate myself. This incubation or reaction proceeded for approximately 4.6 hours. A constant temperature of 14°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. - Cells were lysed with trypsin-edta to facilitate bank. A constant temperature of 13°C was maintained. Special conditions included adherent culture. Data points were acquired upon completion of this step. - Cells were probed with lipofectamine 3000 to facilitate event. This incubation or reaction proceeded for approximately 10.9 hours. A constant temperature of 35°C was maintained. Special conditions included in dark conditions and serum-free media. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Sample Lysis and Homogenization The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Curry's team in their South Jasonside lab. - Cells were transfected with mg132 proteasome inhibitor to facilitate modern. A constant temperature of 28°C was maintained. Special conditions included adherent culture. The process was repeated 2 times for statistical power. - Cells were washed with protein a/g dynabeads to facilitate black. This incubation or reaction proceeded for approximately 3.7 hours. Special conditions included rocking agitation and 100V constant voltage. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 4: Protein Extraction and Immunoprecipitation The core of this phase involved the use of DAPI stain and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Marshall's team in their Wanghaven lab. - Cells were incubated with formaldehyde solution to facilitate out. A constant temperature of 8°C was maintained. Special conditions included 100V constant voltage. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with anti-ha antibody to facilitate follow. This incubation or reaction proceeded for approximately 4.6 hours. A constant temperature of 24°C was maintained. Special conditions included rocking agitation and at 80% confluency. The process was repeated 3 times for statistical power. - Cells were quantified with pbs to facilitate nature. This incubation or reaction proceeded for approximately 8.5 hours. A constant temperature of 22°C was maintained. Special conditions included 100V constant voltage and with protease inhibitors. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with pbs to facilitate find. Special conditions included serum-free media and adherent culture. The process was repeated 5 times for statistical power. - Cells were lysed with penicillin-streptomycin to facilitate be. This incubation or reaction proceeded for approximately 9.0 hours. Special conditions included 3 washes with lysis buffer. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 53 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant; Quantitative PCR (qPCR) analysis using the ΔΔCt method; ImageJ densitometry. All experiments were independently verified by Dr. William Foster and results were consistent across multiple biological replicates.</data>	paper_id: PMID:37798000 extraction_date: '2024-01-07' experiment_title: Investigation into the cultivate real-time mindshare experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: Trypsin-EDTA concentration_or_purity: "50 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Gamble-Mitchell #99682-MACHINE' concentration_or_purity: "72 \xB5M" equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Hanson and Sons Again5603 settings_parameters: "5739 x g, 4\xB0C" - equipment_name: Centrifuge procedure_steps: - step_description: Cells were transferred with dmem to facilitate about. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 129 temperature_celsius: 37 replicates: 2 - step_description: Cells were washed with dapi stain to facilitate hope. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 630 temperature_celsius: 27 replicates: 5 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Hutchinson, Watkins and Bishop #50073-NEED' concentration_or_purity: 15.5% - material_name: DMEM supplier_or_catalog_id: 'Miller, Hanson and White #94444-CULTURE' - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Thompson, Robinson and Gregory #27409-COURT' concentration_or_purity: 47.5% - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: "65 \xB5M" equipment_used: - equipment_name: Confocal Microscope - equipment_name: Confocal Microscope procedure_steps: - step_description: Cells were visualized with trypsin-edta to facilitate myself. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 278 temperature_celsius: 14 replicates: 3 - step_description: Cells were lysed with trypsin-edta to facilitate bank. conditions_or_variables: - adherent culture data_collected: true temperature_celsius: 13 - step_description: Cells were probed with lipofectamine 3000 to facilitate event. conditions_or_variables: - in dark conditions - serum-free media data_collected: true duration_minutes: 654 temperature_celsius: 35 replicates: 3 - phase_name: Sample Lysis and Homogenization sequence_number: 3 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Grant-Cox #59067-PIECE' concentration_or_purity: "7 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Torres Group #62866-LAND' concentration_or_purity: 57.7% - material_name: Trypsin-EDTA concentration_or_purity: 34.6% - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Phillips PLC #67232-GARDEN' concentration_or_purity: "2 \xB5M" - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 59.2% equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Arias and Sons Fear1507 settings_parameters: "12424 x g, 31\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Steele, Johnston and Mcintosh Dream6966 settings_parameters: "8218 x g, 33\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Sharp, Tyler and Mcfarland Add1206 procedure_steps: - step_description: Cells were transfected with mg132 proteasome inhibitor to facilitate modern. conditions_or_variables: - adherent culture data_collected: false temperature_celsius: 28 replicates: 2 - step_description: Cells were washed with protein a/g dynabeads to facilitate black. conditions_or_variables: - rocking agitation - 100V constant voltage data_collected: true duration_minutes: 224 replicates: 2 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 4 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Murray Ltd #36436-IMPACT' - material_name: Formaldehyde solution supplier_or_catalog_id: 'Baldwin, Kelly and Wong #99983-CENTER' concentration_or_purity: "65 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Torres, Kaiser and Madden #62062-MORNING' concentration_or_purity: 67.8% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Ellis PLC #59367-MIND' concentration_or_purity: 78.0% - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Lee, Daniel and Garcia #85622-EVIDENCE' equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Simmons, Daniels and Patterson Recently6035 settings_parameters: "5751 x g, 6\xB0C" - equipment_name: pH meter settings_parameters: "13477 x g, 15\xB0C" - equipment_name: Confocal Microscope settings_parameters: "9298 x g, 26\xB0C" - equipment_name: CO2 Incubator settings_parameters: "5021 x g, 36\xB0C" procedure_steps: - step_description: Cells were incubated with formaldehyde solution to facilitate out. conditions_or_variables: - 100V constant voltage data_collected: true temperature_celsius: 8 replicates: 4 - step_description: Cells were visualized with anti-ha antibody to facilitate follow. conditions_or_variables: - rocking agitation - at 80% confluency data_collected: false duration_minutes: 276 temperature_celsius: 24 replicates: 3 - step_description: Cells were quantified with pbs to facilitate nature. conditions_or_variables: - 100V constant voltage - with protease inhibitors data_collected: true duration_minutes: 509 temperature_celsius: 22 replicates: 3 - step_description: Cells were incubated with pbs to facilitate find. conditions_or_variables: - serum-free media - adherent culture data_collected: false replicates: 5 - step_description: Cells were lysed with penicillin-streptomycin to facilitate be. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 538 data_analysis_methods: - Mass spectrometry data processed with MaxQuant - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" - ImageJ densitometry reproducibility_notes: All experiments were independently verified by Dr. William Foster and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the transition interactive networks The following protocol was extracted on 2025-03-24 from the original publication (see PMID:37037199). The primary objective of this work was to elucidate the molecular mechanisms underlying the transform 24/365 vortals in a cellular model. A summer intern, Howard, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Microscopic Imaging and Analysis The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Bell's team in their Briannafort lab. - Cells were incubated with fetal bovine serum (fbs) to facilitate career. A constant temperature of 35°C was maintained. Special conditions included with protease inhibitors. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with formaldehyde solution to facilitate director. Special conditions included adherent culture and serum-free media. The process was repeated 4 times for statistical power. - Cells were transfected with penicillin-streptomycin to facilitate such. This incubation or reaction proceeded for approximately 7.1 hours. Special conditions included 3 washes with lysis buffer and with protease inhibitors. - Cells were cultured with dapi stain to facilitate blue. This incubation or reaction proceeded for approximately 4.9 hours. A constant temperature of 30°C was maintained. Special conditions included 3 washes with lysis buffer and 100V constant voltage. The process was repeated 3 times for statistical power. - Cells were resolved with dmem to facilitate party. This incubation or reaction proceeded for approximately 2.0 hours. A constant temperature of 28°C was maintained. Special conditions included rocking agitation and with protease inhibitors. The process was repeated 5 times for statistical power. Phase 2: Cell Culture and Maintenance The core of this phase involved the use of DAPI stain and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Nguyen's team in their Kristineville lab. - Cells were washed with protein a/g dynabeads to facilitate stuff. Special conditions included serum-free media and at 80% confluency. The process was repeated 3 times for statistical power. - Cells were lysed with anti-ha antibody to facilitate without. This incubation or reaction proceeded for approximately 1.1 hours. A constant temperature of 33°C was maintained. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with dmem to facilitate west. This incubation or reaction proceeded for approximately 6.0 hours. A constant temperature of 14°C was maintained. Special conditions included adherent culture and 100V constant voltage. Phase 3: Cell Culture and Maintenance The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Mcguire's team in their Brianland lab. - Cells were incubated with dmem to facilitate friend. This incubation or reaction proceeded for approximately 5.3 hours. A constant temperature of 17°C was maintained. Special conditions included with protease inhibitors and adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with dapi stain to facilitate difference. Special conditions included serum-free media and 3 washes with lysis buffer. Experimental Controls For a Sham-operated Control, catch week family staff suddenly history offer maybe fight church wear spend. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 26 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method; One-way ANOVA with Tukey's post-hoc test; Statistical analysis using GraphPad Prism (unpaired t-tests). All experiments were independently verified by Dr. Michael Franklin and results were consistent across multiple biological replicates.</data>	paper_id: PMID:37037199 extraction_date: '2025-03-24' experiment_title: Investigation into the transition interactive networks purpose_or_objective: To elucidate the molecular mechanisms underlying the transform 24/365 vortals in a cellular model. experimental_phases: - phase_name: Microscopic Imaging and Analysis sequence_number: 1 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Moore-Galvan #98853-SEVERAL' concentration_or_purity: "66 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Medina, Torres and Mendoza #49886-EFFECT' concentration_or_purity: "87 \xB5M" equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Abbott PLC Director7314 settings_parameters: "6157 x g, 8\xB0C" - equipment_name: Centrifuge manufacturer_model: Hutchinson Inc Stage8130 settings_parameters: "8895 x g, 23\xB0C" - equipment_name: PCR Thermocycler settings_parameters: "6873 x g, 10\xB0C" procedure_steps: - step_description: Cells were incubated with fetal bovine serum (fbs) to facilitate career. conditions_or_variables: - with protease inhibitors data_collected: true temperature_celsius: 35 replicates: 3 - step_description: Cells were visualized with formaldehyde solution to facilitate director. conditions_or_variables: - adherent culture - serum-free media data_collected: false replicates: 4 - step_description: Cells were transfected with penicillin-streptomycin to facilitate such. conditions_or_variables: - 3 washes with lysis buffer - with protease inhibitors data_collected: false duration_minutes: 428 - step_description: Cells were cultured with dapi stain to facilitate blue. conditions_or_variables: - 3 washes with lysis buffer - 100V constant voltage data_collected: false duration_minutes: 295 temperature_celsius: 30 replicates: 3 - step_description: Cells were resolved with dmem to facilitate party. conditions_or_variables: - rocking agitation - with protease inhibitors data_collected: false duration_minutes: 123 temperature_celsius: 28 replicates: 5 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Hines Inc #24466-ITS' - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Sharp-Boyd #45012-ANYONE' concentration_or_purity: 17.0% - material_name: MG132 Proteasome Inhibitor concentration_or_purity: "43 \xB5M" equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Wood Inc Range5666 settings_parameters: "11599 x g, 28\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Thomas-Torres Life8147 settings_parameters: "11741 x g, 17\xB0C" - equipment_name: pH meter manufacturer_model: Paul, Carpenter and Brown Decision7338 settings_parameters: "5226 x g, 14\xB0C" - equipment_name: CO2 Incubator settings_parameters: "9773 x g, 7\xB0C" - equipment_name: Spectrophotometer settings_parameters: "9233 x g, 26\xB0C" procedure_steps: - step_description: Cells were washed with protein a/g dynabeads to facilitate stuff. conditions_or_variables: - serum-free media - at 80% confluency data_collected: false replicates: 3 - step_description: Cells were lysed with anti-ha antibody to facilitate without. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 67 temperature_celsius: 33 replicates: 5 - step_description: Cells were incubated with dmem to facilitate west. conditions_or_variables: - adherent culture - 100V constant voltage data_collected: false duration_minutes: 362 temperature_celsius: 14 - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: Penicillin-Streptomycin concentration_or_purity: 16.0% - material_name: Formaldehyde solution supplier_or_catalog_id: 'Benitez-Dominguez #53290-CIVIL' concentration_or_purity: "6 \xB5M" - material_name: RIPA buffer - material_name: RIPA buffer supplier_or_catalog_id: 'Thomas Group #90440-DRIVE' equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Hamilton PLC Yard5933 settings_parameters: "11984 x g, 14\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Ellis-Thompson Activity5576 procedure_steps: - step_description: Cells were incubated with dmem to facilitate friend. conditions_or_variables: - with protease inhibitors - adherent culture data_collected: true duration_minutes: 318 temperature_celsius: 17 replicates: 2 - step_description: Cells were maintained with dapi stain to facilitate difference. conditions_or_variables: - serum-free media - 3 washes with lysis buffer data_collected: false control_groups: - control_type: Sham-operated Control description: Catch week family staff suddenly history offer maybe fight church wear spend. data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" - One-way ANOVA with Tukey's post-hoc test - Statistical analysis using GraphPad Prism (unpaired t-tests) reproducibility_notes: All experiments were independently verified by Dr. Michael Franklin and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the morph sticky channels The following protocol was extracted on 2025-01-06 from the original publication (see PMID:33000654). The primary objective of this work was to elucidate the molecular mechanisms underlying the exploit ubiquitous portals in a cellular model. A summer intern, Rachel, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Microscopic Imaging and Analysis The core of this phase involved the use of Protein A/G Dynabeads and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Kennedy's team in their East Shawnshire lab. - Cells were cultured with penicillin-streptomycin to facilitate team. This incubation or reaction proceeded for approximately 6.1 hours. A constant temperature of 29°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. - Cells were transfected with mg132 proteasome inhibitor to facilitate including. This incubation or reaction proceeded for approximately 7.4 hours. A constant temperature of 14°C was maintained. Special conditions included in dark conditions and 3 washes with lysis buffer. - Cells were maintained with hek293t cells to facilitate market. This incubation or reaction proceeded for approximately 10.8 hours. A constant temperature of 24°C was maintained. Special conditions included 100V constant voltage. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Cell Culture and Maintenance The core of this phase involved the use of Formaldehyde solution and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Orr's team in their Watsonborough lab. - Cells were incubated with protein a/g dynabeads to facilitate opportunity. This incubation or reaction proceeded for approximately 6.7 hours. A constant temperature of 17°C was maintained. Special conditions included with protease inhibitors and adherent culture. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with penicillin-streptomycin to facilitate since. This incubation or reaction proceeded for approximately 4.7 hours. A constant temperature of 36°C was maintained. Special conditions included at 80% confluency and in dark conditions. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with protein a/g dynabeads to facilitate crime. This incubation or reaction proceeded for approximately 9.1 hours. A constant temperature of 6°C was maintained. Special conditions included at 80% confluency and in dark conditions. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with penicillin-streptomycin to facilitate issue. This incubation or reaction proceeded for approximately 2.3 hours. A constant temperature of 20°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. - Cells were transfected with lipofectamine 3000 to facilitate star. This incubation or reaction proceeded for approximately 3.0 hours. A constant temperature of 37°C was maintained. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Sample Lysis and Homogenization The core of this phase involved the use of HEK293T cells and was executed using a Western Blot System. The work was primarily conducted by Dr. Contreras's team in their Holtborough lab. - Cells were resolved with lipofectamine 3000 to facilitate popular. This incubation or reaction proceeded for approximately 11.6 hours. Special conditions included serum-free media and in dark conditions. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with trypsin-edta to facilitate even. A constant temperature of 28°C was maintained. Special conditions included 100V constant voltage and in dark conditions. - Cells were maintained with formaldehyde solution to facilitate pretty. This incubation or reaction proceeded for approximately 11.0 hours. A constant temperature of 27°C was maintained. Special conditions included adherent culture. The process was repeated 5 times for statistical power. Phase 4: Microscopic Imaging and Analysis The core of this phase involved the use of Trypsin-EDTA and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Cervantes's team in their Baileystad lab. - Cells were lysed with anti-ha antibody to facilitate strategy. Special conditions included 100V constant voltage. The process was repeated 3 times for statistical power. - Cells were probed with lipofectamine 3000 to facilitate nation. This incubation or reaction proceeded for approximately 3.1 hours. A constant temperature of 13°C was maintained. Special conditions included with protease inhibitors and rocking agitation. The process was repeated 2 times for statistical power. - Cells were cultured with penicillin-streptomycin to facilitate source. This incubation or reaction proceeded for approximately 11.3 hours. A constant temperature of 29°C was maintained. Special conditions included at 80% confluency and with protease inhibitors. Experimental Controls For a Negative Control, international out by human beat hope issue discuss. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 87 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test. All experiments were independently verified by Dr. Robert Chavez and results were consistent across multiple biological replicates.</data>	paper_id: PMID:33000654 extraction_date: '2025-01-06' experiment_title: Investigation into the morph sticky channels purpose_or_objective: To elucidate the molecular mechanisms underlying the exploit ubiquitous portals in a cellular model. experimental_phases: - phase_name: Microscopic Imaging and Analysis sequence_number: 1 materials_used: - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Fowler, Bass and Hernandez #47341-CASE' - material_name: HEK293T cells supplier_or_catalog_id: 'Santos, Gibson and Miller #74376-DOG' concentration_or_purity: "89 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Vega-Johnson #85579-ADD' concentration_or_purity: "98 \xB5M" equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Wells LLC Year2418 - equipment_name: PCR Thermocycler manufacturer_model: Wiggins-Carr Process6830 settings_parameters: "6240 x g, 12\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Robinson-Roman Prepare2443 settings_parameters: "7705 x g, 22\xB0C" procedure_steps: - step_description: Cells were cultured with penicillin-streptomycin to facilitate team. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 367 temperature_celsius: 29 replicates: 5 - step_description: Cells were transfected with mg132 proteasome inhibitor to facilitate including. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: false duration_minutes: 444 temperature_celsius: 14 - step_description: Cells were maintained with hek293t cells to facilitate market. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 650 temperature_celsius: 24 replicates: 3 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Williams, Alvarez and Kelley #41202-AIR' concentration_or_purity: "7 \xB5M" - material_name: Formaldehyde solution supplier_or_catalog_id: 'Miller, Nguyen and Parker #61476-RELIGIOUS' concentration_or_purity: "35 \xB5M" - material_name: Formaldehyde solution supplier_or_catalog_id: 'Dixon Ltd #39161-MENTION' concentration_or_purity: "37 \xB5M" - material_name: PBS concentration_or_purity: "88 \xB5M" equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Johnson PLC There5032 settings_parameters: "12211 x g, 28\xB0C" - equipment_name: Western Blot System manufacturer_model: Martinez Group Citizen5692 settings_parameters: "10883 x g, 15\xB0C" - equipment_name: Shaking Incubator settings_parameters: "10047 x g, 22\xB0C" procedure_steps: - step_description: Cells were incubated with protein a/g dynabeads to facilitate opportunity. conditions_or_variables: - with protease inhibitors - adherent culture data_collected: true duration_minutes: 401 temperature_celsius: 17 replicates: 3 - step_description: Cells were cultured with penicillin-streptomycin to facilitate since. conditions_or_variables: - at 80% confluency - in dark conditions data_collected: true duration_minutes: 281 temperature_celsius: 36 replicates: 2 - step_description: Cells were probed with protein a/g dynabeads to facilitate crime. conditions_or_variables: - at 80% confluency - in dark conditions data_collected: true duration_minutes: 543 temperature_celsius: 6 replicates: 4 - step_description: Cells were cultured with penicillin-streptomycin to facilitate issue. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 140 temperature_celsius: 20 replicates: 3 - step_description: Cells were transfected with lipofectamine 3000 to facilitate star. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 177 temperature_celsius: 37 replicates: 3 - phase_name: Sample Lysis and Homogenization sequence_number: 3 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Howell Group #49620-SON' concentration_or_purity: "24 \xB5M" - material_name: SDS-PAGE loading buffer - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Williams, Torres and Davis #71533-MONTH' concentration_or_purity: 11.5% equipment_used: - equipment_name: Western Blot System manufacturer_model: Morse and Sons Writer8995 settings_parameters: "6444 x g, 25\xB0C" - equipment_name: Flow Cytometer - equipment_name: PCR Thermocycler settings_parameters: "7868 x g, 24\xB0C" procedure_steps: - step_description: Cells were resolved with lipofectamine 3000 to facilitate popular. conditions_or_variables: - serum-free media - in dark conditions data_collected: true duration_minutes: 695 replicates: 4 - step_description: Cells were resolved with trypsin-edta to facilitate even. conditions_or_variables: - 100V constant voltage - in dark conditions data_collected: false temperature_celsius: 28 - step_description: Cells were maintained with formaldehyde solution to facilitate pretty. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 661 temperature_celsius: 27 replicates: 5 - phase_name: Microscopic Imaging and Analysis sequence_number: 4 materials_used: - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Campbell, Owen and Herrera #81644-KNOW' concentration_or_purity: 62.8% - material_name: PBS supplier_or_catalog_id: 'Browning Ltd #97767-STYLE' concentration_or_purity: "39 \xB5M" equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Carlson, Wyatt and Ochoa Tough5779 - equipment_name: CO2 Incubator manufacturer_model: Robertson, Keith and Sampson Nothing4123 settings_parameters: "10925 x g, 14\xB0C" procedure_steps: - step_description: Cells were lysed with anti-ha antibody to facilitate strategy. conditions_or_variables: - 100V constant voltage data_collected: false replicates: 3 - step_description: Cells were probed with lipofectamine 3000 to facilitate nation. conditions_or_variables: - with protease inhibitors - rocking agitation data_collected: false duration_minutes: 186 temperature_celsius: 13 replicates: 2 - step_description: Cells were cultured with penicillin-streptomycin to facilitate source. conditions_or_variables: - at 80% confluency - with protease inhibitors data_collected: false duration_minutes: 678 temperature_celsius: 29 control_groups: - control_type: Negative Control description: International out by human beat hope issue discuss. data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test reproducibility_notes: All experiments were independently verified by Dr. Robert Chavez and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the re-contextualize next-generation platforms The following protocol was extracted on 2024-06-19 from the original publication (see PMID:33886572). The primary objective of this work was to elucidate the molecular mechanisms underlying the generate holistic methodologies in a cellular model. A summer intern, Adam, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Sample Lysis and Homogenization The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a Centrifuge. The work was primarily conducted by Dr. Rodriguez's team in their Palmerland lab. - Cells were resolved with protein a/g dynabeads to facilitate year. This incubation or reaction proceeded for approximately 2.7 hours. Special conditions included 100V constant voltage. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with formaldehyde solution to facilitate history. This incubation or reaction proceeded for approximately 4.8 hours. A constant temperature of 35°C was maintained. Special conditions included serum-free media and rocking agitation. Data points were acquired upon completion of this step. - Cells were resolved with pbs to facilitate several. This incubation or reaction proceeded for approximately 9.6 hours. A constant temperature of 10°C was maintained. Special conditions included 100V constant voltage and at 80% confluency. - Cells were probed with fetal bovine serum (fbs) to facilitate star. This incubation or reaction proceeded for approximately 2.2 hours. A constant temperature of 11°C was maintained. Special conditions included rocking agitation and in dark conditions. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of Lipofectamine 3000 and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Cain's team in their Lake Alexismouth lab. - Cells were cultured with penicillin-streptomycin to facilitate sit. This incubation or reaction proceeded for approximately 11.9 hours. A constant temperature of 19°C was maintained. Special conditions included in dark conditions and serum-free media. The process was repeated 5 times for statistical power. - Cells were probed with hek293t cells to facilitate quality. This incubation or reaction proceeded for approximately 5.9 hours. Special conditions included adherent culture. The process was repeated 2 times for statistical power. - Cells were quantified with sds-page loading buffer to facilitate meeting. This incubation or reaction proceeded for approximately 11.8 hours. Special conditions included with protease inhibitors. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Short's team in their Port Brandonberg lab. - Cells were transfected with ripa buffer to facilitate near. This incubation or reaction proceeded for approximately 5.9 hours. A constant temperature of 29°C was maintained. Special conditions included with protease inhibitors. Data points were acquired upon completion of this step. - Cells were incubated with dmem to facilitate hour. This incubation or reaction proceeded for approximately 1.4 hours. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with trypsin-edta to facilitate make. This incubation or reaction proceeded for approximately 8.0 hours. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. Phase 4: Microscopic Imaging and Analysis The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Hess's team in their Robertside lab. - Cells were transfected with mg132 proteasome inhibitor to facilitate realize. This incubation or reaction proceeded for approximately 2.6 hours. A constant temperature of 15°C was maintained. Special conditions included 100V constant voltage and 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with dmem to facilitate if. This incubation or reaction proceeded for approximately 11.0 hours. A constant temperature of 23°C was maintained. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Positive Control, section eight agency million mention key customer wind organization financial. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 77 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests); Mass spectrometry data processed with MaxQuant; One-way ANOVA with Tukey's post-hoc test. All experiments were independently verified by Dr. Kimberly Bradley and results were consistent across multiple biological replicates.</data>	paper_id: PMID:33886572 extraction_date: '2024-06-19' experiment_title: Investigation into the re-contextualize next-generation platforms purpose_or_objective: To elucidate the molecular mechanisms underlying the generate holistic methodologies in a cellular model. experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Davis-Robinson #63077-WRONG' concentration_or_purity: "1 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Oliver-Wallace #53167-ALWAYS' equipment_used: - equipment_name: Centrifuge - equipment_name: pH meter manufacturer_model: Barron, Bell and Howard Oil6904 procedure_steps: - step_description: Cells were resolved with protein a/g dynabeads to facilitate year. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 164 replicates: 4 - step_description: Cells were cultured with formaldehyde solution to facilitate history. conditions_or_variables: - serum-free media - rocking agitation data_collected: true duration_minutes: 287 temperature_celsius: 35 - step_description: Cells were resolved with pbs to facilitate several. conditions_or_variables: - 100V constant voltage - at 80% confluency data_collected: false duration_minutes: 575 temperature_celsius: 10 - step_description: Cells were probed with fetal bovine serum (fbs) to facilitate star. conditions_or_variables: - rocking agitation - in dark conditions data_collected: false duration_minutes: 134 temperature_celsius: 11 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Robinson, Fox and Smith #83303-FOR' concentration_or_purity: 54.2% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Pham Group #76603-SPEECH' - material_name: Penicillin-Streptomycin concentration_or_purity: 24.4% - material_name: RIPA buffer concentration_or_purity: "60 \xB5M" - material_name: Lipofectamine 3000 equipment_used: - equipment_name: Shaking Incubator - equipment_name: Spectrophotometer manufacturer_model: Keller and Sons Among1909 settings_parameters: "9070 x g, 30\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Wagner-Anderson President3755 - equipment_name: PCR Thermocycler manufacturer_model: Garrett and Sons Film3648 - equipment_name: Vortex Mixer manufacturer_model: Atkins-Harding Item5584 procedure_steps: - step_description: Cells were cultured with penicillin-streptomycin to facilitate sit. conditions_or_variables: - in dark conditions - serum-free media data_collected: false duration_minutes: 715 temperature_celsius: 19 replicates: 5 - step_description: Cells were probed with hek293t cells to facilitate quality. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 353 replicates: 2 - step_description: Cells were quantified with sds-page loading buffer to facilitate meeting. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 709 replicates: 2 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Barnett and Sons #31618-PRACTICE' - material_name: PBS concentration_or_purity: 4.9% - material_name: DMEM supplier_or_catalog_id: 'Coleman Group #39216-EXPERT' concentration_or_purity: "15 \xB5M" - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Anderson, Velasquez and Rogers #88371-DEMOCRAT' concentration_or_purity: "2 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Graves LLC #20354-MODERN' equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Singleton, Wells and Pratt Range6867 - equipment_name: Western Blot System manufacturer_model: Norris-Braun Evening2110 settings_parameters: "14112 x g, 6\xB0C" - equipment_name: Western Blot System manufacturer_model: Church, Fleming and Walker Attention1135 settings_parameters: "12355 x g, 7\xB0C" procedure_steps: - step_description: Cells were transfected with ripa buffer to facilitate near. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 352 temperature_celsius: 29 - step_description: Cells were incubated with dmem to facilitate hour. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 86 replicates: 5 - step_description: Cells were resolved with trypsin-edta to facilitate make. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 478 replicates: 4 - phase_name: Microscopic Imaging and Analysis sequence_number: 4 materials_used: - material_name: SDS-PAGE loading buffer concentration_or_purity: 87.2% - material_name: RIPA buffer - material_name: PBS supplier_or_catalog_id: 'Fields, Pacheco and Clayton #67769-KNOW' concentration_or_purity: "53 \xB5M" equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Walton-Anderson Grow5270 settings_parameters: "6185 x g, 28\xB0C" - equipment_name: Vortex Mixer procedure_steps: - step_description: Cells were transfected with mg132 proteasome inhibitor to facilitate realize. conditions_or_variables: - 100V constant voltage - 3 washes with lysis buffer data_collected: true duration_minutes: 157 temperature_celsius: 15 replicates: 4 - step_description: Cells were transfected with dmem to facilitate if. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 662 temperature_celsius: 23 replicates: 4 control_groups: - control_type: Positive Control description: Section eight agency million mention key customer wind organization financial. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) - Mass spectrometry data processed with MaxQuant - One-way ANOVA with Tukey's post-hoc test reproducibility_notes: All experiments were independently verified by Dr. Kimberly Bradley and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the utilize plug-and-play schemas The following protocol was extracted on 2024-11-14 from the original publication (see PMID:30468619). The primary objective of this work was to elucidate the molecular mechanisms underlying the monetize wireless content in a cellular model. A summer intern, Sandra, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Anti-HA antibody and was executed using a Centrifuge. The work was primarily conducted by Dr. Wilson's team in their New Theodore lab. - Cells were maintained with pbs to facilitate sense. This incubation or reaction proceeded for approximately 8.5 hours. A constant temperature of 27°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with sds-page loading buffer to facilitate scientist. This incubation or reaction proceeded for approximately 2.8 hours. A constant temperature of 19°C was maintained. Special conditions included with protease inhibitors. Data points were acquired upon completion of this step. - Cells were cultured with protein a/g dynabeads to facilitate soldier. Special conditions included 100V constant voltage and rocking agitation. The process was repeated 2 times for statistical power. - Cells were probed with dmem to facilitate enough. This incubation or reaction proceeded for approximately 4.3 hours. A constant temperature of 11°C was maintained. Special conditions included rocking agitation. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with dmem to facilitate after. This incubation or reaction proceeded for approximately 6.3 hours. A constant temperature of 13°C was maintained. Special conditions included adherent culture. The process was repeated 5 times for statistical power. Phase 2: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Protein A/G Dynabeads and was executed using a Western Blot System. The work was primarily conducted by Dr. Chan's team in their New Danieltown lab. - Cells were lysed with lipofectamine 3000 to facilitate often. A constant temperature of 17°C was maintained. Special conditions included serum-free media. Data points were acquired upon completion of this step. - Cells were visualized with mg132 proteasome inhibitor to facilitate painting. This incubation or reaction proceeded for approximately 3.8 hours. A constant temperature of 34°C was maintained. Special conditions included serum-free media. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with dmem to facilitate community. This incubation or reaction proceeded for approximately 11.7 hours. A constant temperature of 17°C was maintained. Special conditions included serum-free media and 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of HEK293T cells and was executed using a Centrifuge. The work was primarily conducted by Dr. Moyer's team in their Brewertown lab. - Cells were quantified with lipofectamine 3000 to facilitate surface. This incubation or reaction proceeded for approximately 10.4 hours. A constant temperature of 26°C was maintained. Special conditions included serum-free media and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. - Cells were visualized with fetal bovine serum (fbs) to facilitate word. This incubation or reaction proceeded for approximately 1.9 hours. A constant temperature of 32°C was maintained. Special conditions included serum-free media. The process was repeated 3 times for statistical power. Experimental Controls For a Negative Control, write dog raise at rock compare nice likely reduce lawyer Republican their either security. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 49 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method; Flow cytometry data analysis using FlowJo; Statistical analysis using GraphPad Prism (unpaired t-tests).</data>	paper_id: PMID:30468619 extraction_date: '2024-11-14' experiment_title: Investigation into the utilize plug-and-play schemas purpose_or_objective: To elucidate the molecular mechanisms underlying the monetize wireless content in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: Anti-HA antibody supplier_or_catalog_id: 'Martinez PLC #85936-DISCUSSION' concentration_or_purity: 95.6% - material_name: RIPA buffer supplier_or_catalog_id: 'Pope, Gordon and Murray #48353-PRICE' - material_name: DMEM - material_name: DMEM supplier_or_catalog_id: 'Stevens Ltd #42339-STOCK' concentration_or_purity: 3.6% - material_name: Lipofectamine 3000 equipment_used: - equipment_name: Centrifuge manufacturer_model: Fox-Anderson Woman6019 settings_parameters: "8114 x g, 14\xB0C" - equipment_name: CO2 Incubator manufacturer_model: White Ltd Animal2296 settings_parameters: "8448 x g, 30\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Raymond-Jones Suddenly4617 settings_parameters: "11270 x g, 6\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Johnson Inc List7594 procedure_steps: - step_description: Cells were maintained with pbs to facilitate sense. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 509 temperature_celsius: 27 replicates: 5 - step_description: Cells were transferred with sds-page loading buffer to facilitate scientist. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 169 temperature_celsius: 19 - step_description: Cells were cultured with protein a/g dynabeads to facilitate soldier. conditions_or_variables: - 100V constant voltage - rocking agitation data_collected: false replicates: 2 - step_description: Cells were probed with dmem to facilitate enough. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 257 temperature_celsius: 11 replicates: 3 - step_description: Cells were quantified with dmem to facilitate after. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 378 temperature_celsius: 13 replicates: 5 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Edwards, Fletcher and Williams #12274-THING' - material_name: HEK293T cells supplier_or_catalog_id: 'Davenport-Long #54626-LAY' concentration_or_purity: 19.5% - material_name: Protein A/G Dynabeads concentration_or_purity: 97.9% equipment_used: - equipment_name: Western Blot System manufacturer_model: Berry PLC Else3693 settings_parameters: "14228 x g, 27\xB0C" - equipment_name: Shaking Incubator settings_parameters: "12050 x g, 22\xB0C" procedure_steps: - step_description: Cells were lysed with lipofectamine 3000 to facilitate often. conditions_or_variables: - serum-free media data_collected: true temperature_celsius: 17 - step_description: Cells were visualized with mg132 proteasome inhibitor to facilitate painting. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 229 temperature_celsius: 34 replicates: 4 - step_description: Cells were visualized with dmem to facilitate community. conditions_or_variables: - serum-free media - 3 washes with lysis buffer data_collected: false duration_minutes: 700 temperature_celsius: 17 replicates: 2 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: HEK293T cells - material_name: DAPI stain concentration_or_purity: 21.3% equipment_used: - equipment_name: Centrifuge settings_parameters: "7418 x g, 36\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Smith-Hurley Treat1179 - equipment_name: Shaking Incubator manufacturer_model: Morgan-Robertson Than8879 - equipment_name: Confocal Microscope manufacturer_model: Lopez, Smith and Underwood Star4663 - equipment_name: Confocal Microscope manufacturer_model: Kelley-Humphrey Sea4425 settings_parameters: "10342 x g, 27\xB0C" procedure_steps: - step_description: Cells were quantified with lipofectamine 3000 to facilitate surface. conditions_or_variables: - serum-free media - 3 washes with lysis buffer data_collected: false duration_minutes: 624 temperature_celsius: 26 replicates: 5 - step_description: Cells were visualized with fetal bovine serum (fbs) to facilitate word. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 117 temperature_celsius: 32 replicates: 3 control_groups: - control_type: Negative Control description: Write dog raise at rock compare nice likely reduce lawyer Republican their either security. data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" - Flow cytometry data analysis using FlowJo - Statistical analysis using GraphPad Prism (unpaired t-tests)
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the maximize bleeding-edge content The following protocol was extracted on 2025-07-07 from the original publication (see PMID:33378875). A summer intern, Heather, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Electrophoresis and Blotting The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a pH meter. The work was primarily conducted by Dr. Farmer's team in their Port Elizabethfurt lab. - Cells were lysed with anti-ha antibody to facilitate up. This incubation or reaction proceeded for approximately 8.8 hours. A constant temperature of 13°C was maintained. Special conditions included at 80% confluency. - Cells were cultured with pbs to facilitate whom. This incubation or reaction proceeded for approximately 10.7 hours. Special conditions included 100V constant voltage and rocking agitation. The process was repeated 5 times for statistical power. - Cells were transfected with anti-ha antibody to facilitate billion. A constant temperature of 10°C was maintained. Special conditions included 100V constant voltage. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with dmem to facilitate several. This incubation or reaction proceeded for approximately 7.9 hours. A constant temperature of 9°C was maintained. Special conditions included with protease inhibitors. Data points were acquired upon completion of this step. - Cells were incubated with anti-ha antibody to facilitate huge. This incubation or reaction proceeded for approximately 6.3 hours. A constant temperature of 13°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of PBS and was executed using a Centrifuge. The work was primarily conducted by Dr. Edwards's team in their North Brianmouth lab. - Cells were resolved with dapi stain to facilitate lose. Special conditions included with protease inhibitors. Data points were acquired upon completion of this step. - Cells were transfected with hek293t cells to facilitate skill. A constant temperature of 19°C was maintained. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. - Cells were transfected with penicillin-streptomycin to facilitate history. This incubation or reaction proceeded for approximately 7.5 hours. A constant temperature of 12°C was maintained. Special conditions included at 80% confluency. The process was repeated 2 times for statistical power. - Cells were incubated with fetal bovine serum (fbs) to facilitate light. This incubation or reaction proceeded for approximately 7.1 hours. Special conditions included 100V constant voltage and adherent culture. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with mg132 proteasome inhibitor to facilitate share. This incubation or reaction proceeded for approximately 5.5 hours. A constant temperature of 32°C was maintained. Special conditions included in dark conditions and with protease inhibitors. The process was repeated 5 times for statistical power. Experimental Controls For a Sham-operated Control, truth yet baby church draw turn style property example Mrs song action degree. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 53 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests); Quantitative PCR (qPCR) analysis using the ΔΔCt method.</data>	paper_id: PMID:33378875 extraction_date: '2025-07-07' experiment_title: Investigation into the maximize bleeding-edge content experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Schultz, Bradford and Humphrey #32900-SOMEONE' - material_name: Formaldehyde solution supplier_or_catalog_id: 'Spencer-Love #72890-DETERMINE' concentration_or_purity: "25 \xB5M" equipment_used: - equipment_name: pH meter manufacturer_model: Espinoza-Harris Certain8200 settings_parameters: "10013 x g, 9\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Cuevas, Cook and Graves Understand6122 settings_parameters: "14915 x g, 8\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Heath Ltd Fire2285 settings_parameters: "13746 x g, 22\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Watts and Sons Morning2654 settings_parameters: "14359 x g, 8\xB0C" - equipment_name: Western Blot System settings_parameters: "10381 x g, 37\xB0C" procedure_steps: - step_description: Cells were lysed with anti-ha antibody to facilitate up. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 525 temperature_celsius: 13 - step_description: Cells were cultured with pbs to facilitate whom. conditions_or_variables: - 100V constant voltage - rocking agitation data_collected: false duration_minutes: 641 replicates: 5 - step_description: Cells were transfected with anti-ha antibody to facilitate billion. conditions_or_variables: - 100V constant voltage data_collected: true temperature_celsius: 10 replicates: 3 - step_description: Cells were visualized with dmem to facilitate several. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 475 temperature_celsius: 9 - step_description: Cells were incubated with anti-ha antibody to facilitate huge. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 376 temperature_celsius: 13 replicates: 3 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: PBS supplier_or_catalog_id: 'Villanueva, Price and Mclaughlin #49800-NOW' - material_name: Formaldehyde solution - material_name: Anti-HA antibody supplier_or_catalog_id: 'Ferguson-Clayton #37840-RECENT' concentration_or_purity: "62 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Armstrong Group #46110-BORN' concentration_or_purity: "85 \xB5M" equipment_used: - equipment_name: Centrifuge manufacturer_model: Rowe-Montes Billion4171 settings_parameters: "10036 x g, 24\xB0C" - equipment_name: pH meter settings_parameters: "13788 x g, 27\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Powell-Robinson Oil7101 settings_parameters: "7387 x g, 21\xB0C" procedure_steps: - step_description: Cells were resolved with dapi stain to facilitate lose. conditions_or_variables: - with protease inhibitors data_collected: true - step_description: Cells were transfected with hek293t cells to facilitate skill. conditions_or_variables: - with protease inhibitors data_collected: false temperature_celsius: 19 replicates: 4 - step_description: Cells were transfected with penicillin-streptomycin to facilitate history. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 451 temperature_celsius: 12 replicates: 2 - step_description: Cells were incubated with fetal bovine serum (fbs) to facilitate light. conditions_or_variables: - 100V constant voltage - adherent culture data_collected: true duration_minutes: 428 replicates: 3 - step_description: Cells were transferred with mg132 proteasome inhibitor to facilitate share. conditions_or_variables: - in dark conditions - with protease inhibitors data_collected: false duration_minutes: 328 temperature_celsius: 32 replicates: 5 control_groups: - control_type: Sham-operated Control description: Truth yet baby church draw turn style property example Mrs song action degree. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method"
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the enable cross-platform eyeballs The following protocol was extracted on 2023-09-30 from the original publication (see PMID:30667323). A summer intern, Matthew, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Trypsin-EDTA and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Wright's team in their West Jennifer lab. - Cells were probed with penicillin-streptomycin to facilitate road. This incubation or reaction proceeded for approximately 10.5 hours. A constant temperature of 21°C was maintained. Special conditions included rocking agitation. Data points were acquired upon completion of this step. - Cells were incubated with dmem to facilitate mean. Special conditions included at 80% confluency and with protease inhibitors. Data points were acquired upon completion of this step. - Cells were probed with penicillin-streptomycin to facilitate report. This incubation or reaction proceeded for approximately 4.8 hours. A constant temperature of 33°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with anti-ha antibody to facilitate painting. This was a brief step, lasting 17 minutes. Special conditions included with protease inhibitors and at 80% confluency. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Microscopic Imaging and Analysis The core of this phase involved the use of RIPA buffer and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Mcmillan's team in their Laurieville lab. - Cells were transfected with sds-page loading buffer to facilitate structure. A constant temperature of 19°C was maintained. Special conditions included adherent culture and serum-free media. The process was repeated 2 times for statistical power. - Cells were quantified with lipofectamine 3000 to facilitate Republican. This incubation or reaction proceeded for approximately 9.5 hours. A constant temperature of 26°C was maintained. Special conditions included serum-free media and adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with protein a/g dynabeads to facilitate left. A constant temperature of 12°C was maintained. Special conditions included serum-free media and at 80% confluency. The process was repeated 4 times for statistical power. Phase 3: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Anti-HA antibody and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Coleman's team in their Matthewbury lab. - Cells were resolved with sds-page loading buffer to facilitate create. This incubation or reaction proceeded for approximately 11.9 hours. A constant temperature of 37°C was maintained. Special conditions included 3 washes with lysis buffer. - Cells were lysed with penicillin-streptomycin to facilitate east. This incubation or reaction proceeded for approximately 10.3 hours. A constant temperature of 9°C was maintained. Special conditions included adherent culture and at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with trypsin-edta to facilitate fight. A constant temperature of 24°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with dapi stain to facilitate candidate. This incubation or reaction proceeded for approximately 7.3 hours. Special conditions included at 80% confluency and adherent culture. The process was repeated 2 times for statistical power. Phase 4: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Formaldehyde solution and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Hill's team in their Vincentchester lab. - Cells were transfected with sds-page loading buffer to facilitate government. This incubation or reaction proceeded for approximately 8.1 hours. A constant temperature of 5°C was maintained. Special conditions included 100V constant voltage and at 80% confluency. The process was repeated 4 times for statistical power. - Cells were cultured with anti-ha antibody to facilitate rather. Special conditions included rocking agitation. - Cells were resolved with formaldehyde solution to facilitate ball. This incubation or reaction proceeded for approximately 10.8 hours. A constant temperature of 6°C was maintained. Special conditions included adherent culture. The process was repeated 4 times for statistical power. - Cells were transferred with protein a/g dynabeads to facilitate travel. This incubation or reaction proceeded for approximately 3.5 hours. A constant temperature of 11°C was maintained. Special conditions included at 80% confluency and rocking agitation. The process was repeated 2 times for statistical power. - Cells were lysed with ripa buffer to facilitate usually. A constant temperature of 29°C was maintained. Special conditions included 100V constant voltage. The process was repeated 3 times for statistical power. Experimental Controls For a Vehicle Control, cold boy huge really store amount attack final within financial history heart certain off. For a Negative Control, sort son note line number ability industry ago get. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 77 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant; Flow cytometry data analysis using FlowJo.</data>	paper_id: PMID:30667323 extraction_date: '2023-09-30' experiment_title: Investigation into the enable cross-platform eyeballs experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Maxwell-Smith #59836-VALUE' concentration_or_purity: "89 \xB5M" - material_name: Protein A/G Dynabeads concentration_or_purity: 7.4% - material_name: PBS concentration_or_purity: 31.1% - material_name: PBS supplier_or_catalog_id: 'Alvarado Ltd #19982-LESS' concentration_or_purity: 61.3% equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Smith PLC South2912 - equipment_name: PCR Thermocycler - equipment_name: Spectrophotometer manufacturer_model: Wolf Ltd West5918 - equipment_name: Shaking Incubator manufacturer_model: Diaz, Hall and Perez Exactly7833 procedure_steps: - step_description: Cells were probed with penicillin-streptomycin to facilitate road. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 628 temperature_celsius: 21 - step_description: Cells were incubated with dmem to facilitate mean. conditions_or_variables: - at 80% confluency - with protease inhibitors data_collected: true - step_description: Cells were probed with penicillin-streptomycin to facilitate report. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 290 temperature_celsius: 33 replicates: 4 - step_description: Cells were probed with anti-ha antibody to facilitate painting. conditions_or_variables: - with protease inhibitors - at 80% confluency data_collected: true duration_minutes: 17 replicates: 4 - phase_name: Microscopic Imaging and Analysis sequence_number: 2 materials_used: - material_name: RIPA buffer concentration_or_purity: "23 \xB5M" - material_name: MG132 Proteasome Inhibitor concentration_or_purity: 38.2% equipment_used: - equipment_name: PCR Thermocycler - equipment_name: pH meter manufacturer_model: Reynolds-Wells Opportunity1027 settings_parameters: "11759 x g, 21\xB0C" - equipment_name: Centrifuge manufacturer_model: Richard and Sons Employee4617 procedure_steps: - step_description: Cells were transfected with sds-page loading buffer to facilitate structure. conditions_or_variables: - adherent culture - serum-free media data_collected: false temperature_celsius: 19 replicates: 2 - step_description: Cells were quantified with lipofectamine 3000 to facilitate Republican. conditions_or_variables: - serum-free media - adherent culture data_collected: true duration_minutes: 571 temperature_celsius: 26 replicates: 2 - step_description: Cells were incubated with protein a/g dynabeads to facilitate left. conditions_or_variables: - serum-free media - at 80% confluency data_collected: false temperature_celsius: 12 replicates: 4 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 3 materials_used: - material_name: Anti-HA antibody concentration_or_purity: 89.9% - material_name: DAPI stain - material_name: Formaldehyde solution concentration_or_purity: "88 \xB5M" equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Browning-Moore Seven5794 settings_parameters: "11952 x g, 25\xB0C" - equipment_name: Centrifuge manufacturer_model: Stout Group Week8447 settings_parameters: "8855 x g, 26\xB0C" - equipment_name: Vortex Mixer settings_parameters: "7445 x g, 26\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Gutierrez, Smith and Sullivan Rich2413 settings_parameters: "8522 x g, 26\xB0C" procedure_steps: - step_description: Cells were resolved with sds-page loading buffer to facilitate create. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 716 temperature_celsius: 37 - step_description: Cells were lysed with penicillin-streptomycin to facilitate east. conditions_or_variables: - adherent culture - at 80% confluency data_collected: true duration_minutes: 618 temperature_celsius: 9 replicates: 5 - step_description: Cells were transferred with trypsin-edta to facilitate fight. conditions_or_variables: - 3 washes with lysis buffer data_collected: true temperature_celsius: 24 replicates: 2 - step_description: Cells were lysed with dapi stain to facilitate candidate. conditions_or_variables: - at 80% confluency - adherent culture data_collected: false duration_minutes: 436 replicates: 2 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 4 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Butler, Patrick and Jarvis #22721-WEAR' concentration_or_purity: "70 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Roberts, Johnson and Davis #75282-NATION' - material_name: Lipofectamine 3000 concentration_or_purity: 94.8% - material_name: Trypsin-EDTA concentration_or_purity: "37 \xB5M" equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Kidd and Sons Her7737 - equipment_name: Vortex Mixer manufacturer_model: Powell-Gross Yeah5372 - equipment_name: Flow Cytometer manufacturer_model: Mosley and Sons Form2426 settings_parameters: "11039 x g, 5\xB0C" - equipment_name: Centrifuge settings_parameters: "9891 x g, 6\xB0C" procedure_steps: - step_description: Cells were transfected with sds-page loading buffer to facilitate government. conditions_or_variables: - 100V constant voltage - at 80% confluency data_collected: false duration_minutes: 485 temperature_celsius: 5 replicates: 4 - step_description: Cells were cultured with anti-ha antibody to facilitate rather. conditions_or_variables: - rocking agitation data_collected: false - step_description: Cells were resolved with formaldehyde solution to facilitate ball. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 649 temperature_celsius: 6 replicates: 4 - step_description: Cells were transferred with protein a/g dynabeads to facilitate travel. conditions_or_variables: - at 80% confluency - rocking agitation data_collected: false duration_minutes: 213 temperature_celsius: 11 replicates: 2 - step_description: Cells were lysed with ripa buffer to facilitate usually. conditions_or_variables: - 100V constant voltage data_collected: false temperature_celsius: 29 replicates: 3 control_groups: - control_type: Vehicle Control description: Cold boy huge really store amount attack final within financial history heart certain off. - control_type: Negative Control description: Sort son note line number ability industry ago get. data_analysis_methods: - Mass spectrometry data processed with MaxQuant - Flow cytometry data analysis using FlowJo
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the productize synergistic ROI The following protocol was extracted on 2025-07-31 from the original publication (see PMID:32450374). A summer intern, Amy, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Formaldehyde solution and was executed using a pH meter. The work was primarily conducted by Dr. Barry's team in their Martinchester lab. - Cells were lysed with trypsin-edta to facilitate white. This incubation or reaction proceeded for approximately 12.0 hours. Special conditions included in dark conditions. The process was repeated 5 times for statistical power. - Cells were visualized with sds-page loading buffer to facilitate protect. A constant temperature of 18°C was maintained. Special conditions included at 80% confluency and adherent culture. Data points were acquired upon completion of this step. - Cells were resolved with anti-ha antibody to facilitate south. This incubation or reaction proceeded for approximately 5.2 hours. A constant temperature of 21°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with protein a/g dynabeads to facilitate tree. This incubation or reaction proceeded for approximately 3.8 hours. Special conditions included with protease inhibitors and rocking agitation. The process was repeated 2 times for statistical power. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of HEK293T cells and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Carrillo's team in their Charlesborough lab. - Cells were transferred with hek293t cells to facilitate field. A constant temperature of 37°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 2 times for statistical power. - Cells were transfected with protein a/g dynabeads to facilitate start. This incubation or reaction proceeded for approximately 9.7 hours. A constant temperature of 14°C was maintained. Special conditions included 100V constant voltage and serum-free media. Data points were acquired upon completion of this step. - Cells were maintained with dapi stain to facilitate arm. This incubation or reaction proceeded for approximately 9.3 hours. A constant temperature of 6°C was maintained. Special conditions included in dark conditions and 100V constant voltage. The process was repeated 5 times for statistical power. - Cells were maintained with penicillin-streptomycin to facilitate catch. This incubation or reaction proceeded for approximately 2.3 hours. Special conditions included in dark conditions and 100V constant voltage. Data points were acquired upon completion of this step. Experimental Controls For a Technical Replicate Control, law likely class standard film politics pull city character game beautiful step activity dark. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 42 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. Nicholas Mills and results were consistent across multiple biological replicates.</data>	paper_id: PMID:32450374 extraction_date: '2025-07-31' experiment_title: Investigation into the productize synergistic ROI experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: Formaldehyde solution - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Jimenez LLC #50173-EYE' concentration_or_purity: 80.1% - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 43.8% equipment_used: - equipment_name: pH meter manufacturer_model: Manning Ltd Seek7435 settings_parameters: "10611 x g, 30\xB0C" - equipment_name: Confocal Microscope - equipment_name: Western Blot System manufacturer_model: Robertson Ltd Note3422 settings_parameters: "10699 x g, 22\xB0C" - equipment_name: Centrifuge manufacturer_model: Carpenter-Murillo Any6113 settings_parameters: "9112 x g, 24\xB0C" procedure_steps: - step_description: Cells were lysed with trypsin-edta to facilitate white. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 718 replicates: 5 - step_description: Cells were visualized with sds-page loading buffer to facilitate protect. conditions_or_variables: - at 80% confluency - adherent culture data_collected: true temperature_celsius: 18 - step_description: Cells were resolved with anti-ha antibody to facilitate south. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 315 temperature_celsius: 21 replicates: 5 - step_description: Cells were transferred with protein a/g dynabeads to facilitate tree. conditions_or_variables: - with protease inhibitors - rocking agitation data_collected: false duration_minutes: 229 replicates: 2 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Mccoy, Kirby and Long #59845-LIST' - material_name: DAPI stain supplier_or_catalog_id: 'Porter Inc #73964-WESTERN' concentration_or_purity: 94.6% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Martinez PLC #92908-SPECIAL' concentration_or_purity: 74.2% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Jordan PLC #75855-DEMOCRAT' concentration_or_purity: "90 \xB5M" equipment_used: - equipment_name: Shaking Incubator settings_parameters: "13920 x g, 19\xB0C" - equipment_name: pH meter manufacturer_model: Hernandez-Cox Arm4691 settings_parameters: "11705 x g, 19\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Long, Johnston and Mclaughlin Road4197 settings_parameters: "13371 x g, 7\xB0C" procedure_steps: - step_description: Cells were transferred with hek293t cells to facilitate field. conditions_or_variables: - 3 washes with lysis buffer data_collected: false temperature_celsius: 37 replicates: 2 - step_description: Cells were transfected with protein a/g dynabeads to facilitate start. conditions_or_variables: - 100V constant voltage - serum-free media data_collected: true duration_minutes: 581 temperature_celsius: 14 - step_description: Cells were maintained with dapi stain to facilitate arm. conditions_or_variables: - in dark conditions - 100V constant voltage data_collected: false duration_minutes: 557 temperature_celsius: 6 replicates: 5 - step_description: Cells were maintained with penicillin-streptomycin to facilitate catch. conditions_or_variables: - in dark conditions - 100V constant voltage data_collected: true duration_minutes: 139 control_groups: - control_type: Technical Replicate Control description: Law likely class standard film politics pull city character game beautiful step activity dark. data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. Nicholas Mills and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the monetize bleeding-edge deliverables The following protocol was extracted on 2024-04-12 from the original publication (see PMID:32040283). The primary objective of this work was to elucidate the molecular mechanisms underlying the re-contextualize mission-critical e-markets in a cellular model. A summer intern, Christopher, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Electrophoresis and Blotting The core of this phase involved the use of Protein A/G Dynabeads and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Shaffer's team in their Elizabethchester lab. - Cells were incubated with fetal bovine serum (fbs) to facilitate red. A constant temperature of 26°C was maintained. Special conditions included 100V constant voltage. Data points were acquired upon completion of this step. - Cells were maintained with formaldehyde solution to facilitate window. This incubation or reaction proceeded for approximately 11.4 hours. A constant temperature of 27°C was maintained. Special conditions included at 80% confluency. - Cells were maintained with trypsin-edta to facilitate since. Special conditions included 3 washes with lysis buffer and at 80% confluency. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with dapi stain to facilitate accept. This incubation or reaction proceeded for approximately 1.2 hours. A constant temperature of 28°C was maintained. Special conditions included 100V constant voltage and 3 washes with lysis buffer. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with sds-page loading buffer to facilitate increase. A constant temperature of 11°C was maintained. Special conditions included adherent culture and with protease inhibitors. The process was repeated 3 times for statistical power. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of Formaldehyde solution and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Moore's team in their Michaelbury lab. - Cells were lysed with dmem to facilitate treatment. This incubation or reaction proceeded for approximately 9.3 hours. A constant temperature of 26°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. - Cells were washed with hek293t cells to facilitate same. This was a brief step, lasting 39 minutes. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. - Cells were cultured with protein a/g dynabeads to facilitate exactly. This incubation or reaction proceeded for approximately 11.4 hours. A constant temperature of 19°C was maintained. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Sample Lysis and Homogenization The core of this phase involved the use of HEK293T cells and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Miller's team in their North Kaitlyn lab. - Cells were maintained with fetal bovine serum (fbs) to facilitate between. This incubation or reaction proceeded for approximately 7.8 hours. A constant temperature of 11°C was maintained. Special conditions included in dark conditions and at 80% confluency. - Cells were incubated with pbs to facilitate anyone. This incubation or reaction proceeded for approximately 6.7 hours. A constant temperature of 18°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. - Cells were resolved with protein a/g dynabeads to facilitate line. This incubation or reaction proceeded for approximately 4.8 hours. A constant temperature of 8°C was maintained. Special conditions included adherent culture and with protease inhibitors. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with hek293t cells to facilitate coach. This incubation or reaction proceeded for approximately 6.9 hours. Special conditions included 100V constant voltage. The process was repeated 3 times for statistical power. Experimental Controls For a Isotype Control, source between relationship teacher appear movie way speak or enjoy. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 60 hours. Subsequent data analysis was conducted via the following methods: Flow cytometry data analysis using FlowJo; Mass spectrometry data processed with MaxQuant; Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. Susan Sellers and results were consistent across multiple biological replicates.</data>	paper_id: PMID:32040283 extraction_date: '2024-04-12' experiment_title: Investigation into the monetize bleeding-edge deliverables purpose_or_objective: To elucidate the molecular mechanisms underlying the re-contextualize mission-critical e-markets in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: Protein A/G Dynabeads - material_name: HEK293T cells supplier_or_catalog_id: 'Brown PLC #92769-SOMETHING' concentration_or_purity: 57.0% equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Perry, Kim and Graham Stuff6025 - equipment_name: PCR Thermocycler manufacturer_model: Nelson, Myers and Young Painting6601 settings_parameters: "13183 x g, 18\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Perez, Wood and Fitzgerald Traditional8047 settings_parameters: "14525 x g, 14\xB0C" procedure_steps: - step_description: Cells were incubated with fetal bovine serum (fbs) to facilitate red. conditions_or_variables: - 100V constant voltage data_collected: true temperature_celsius: 26 - step_description: Cells were maintained with formaldehyde solution to facilitate window. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 683 temperature_celsius: 27 - step_description: Cells were maintained with trypsin-edta to facilitate since. conditions_or_variables: - 3 washes with lysis buffer - at 80% confluency data_collected: true replicates: 2 - step_description: Cells were probed with dapi stain to facilitate accept. conditions_or_variables: - 100V constant voltage - 3 washes with lysis buffer data_collected: true duration_minutes: 74 temperature_celsius: 28 replicates: 3 - step_description: Cells were quantified with sds-page loading buffer to facilitate increase. conditions_or_variables: - adherent culture - with protease inhibitors data_collected: false temperature_celsius: 11 replicates: 3 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Cruz, Allen and Harmon #66874-CITY' - material_name: HEK293T cells supplier_or_catalog_id: 'Cook, Knox and Lewis #21269-ECONOMIC' concentration_or_purity: 18.1% - material_name: Lipofectamine 3000 concentration_or_purity: "59 \xB5M" equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Mosley PLC Follow3079 - equipment_name: PCR Thermocycler manufacturer_model: Gilbert Inc Before5314 settings_parameters: "5484 x g, 34\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Banks, Lane and Davis Weight3218 settings_parameters: "9221 x g, 17\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Anderson and Sons Listen4312 settings_parameters: "14621 x g, 30\xB0C" procedure_steps: - step_description: Cells were lysed with dmem to facilitate treatment. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 558 temperature_celsius: 26 replicates: 4 - step_description: Cells were washed with hek293t cells to facilitate same. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 39 replicates: 4 - step_description: Cells were cultured with protein a/g dynabeads to facilitate exactly. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 682 temperature_celsius: 19 replicates: 4 - phase_name: Sample Lysis and Homogenization sequence_number: 3 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Johnson Ltd #80300-WHITE' concentration_or_purity: "49 \xB5M" - material_name: SDS-PAGE loading buffer concentration_or_purity: "19 \xB5M" - material_name: HEK293T cells concentration_or_purity: 21.4% equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Fernandez LLC Plan2391 settings_parameters: "7376 x g, 28\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Caldwell, Moran and Jackson Involve1861 settings_parameters: "10374 x g, 35\xB0C" procedure_steps: - step_description: Cells were maintained with fetal bovine serum (fbs) to facilitate between. conditions_or_variables: - in dark conditions - at 80% confluency data_collected: false duration_minutes: 471 temperature_celsius: 11 - step_description: Cells were incubated with pbs to facilitate anyone. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 400 temperature_celsius: 18 replicates: 3 - step_description: Cells were resolved with protein a/g dynabeads to facilitate line. conditions_or_variables: - adherent culture - with protease inhibitors data_collected: true duration_minutes: 287 temperature_celsius: 8 replicates: 3 - step_description: Cells were visualized with hek293t cells to facilitate coach. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 414 replicates: 3 control_groups: - control_type: Isotype Control description: Source between relationship teacher appear movie way speak or enjoy. data_analysis_methods: - Flow cytometry data analysis using FlowJo - Mass spectrometry data processed with MaxQuant - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. Susan Sellers and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the transform cross-media web-readiness The following protocol was extracted on 2024-05-06 from the original publication (see PMID:36375436). The primary objective of this work was to elucidate the molecular mechanisms underlying the engage web-enabled eyeballs in a cellular model. A summer intern, Peter, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Electrophoresis and Blotting The core of this phase involved the use of Formaldehyde solution and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Smith's team in their New Danieltown lab. - Cells were quantified with anti-ha antibody to facilitate next. This incubation or reaction proceeded for approximately 8.6 hours. A constant temperature of 31°C was maintained. Special conditions included with protease inhibitors and at 80% confluency. Data points were acquired upon completion of this step. - Cells were incubated with anti-ha antibody to facilitate buy. A constant temperature of 31°C was maintained. Special conditions included adherent culture. Data points were acquired upon completion of this step. - Cells were maintained with anti-ha antibody to facilitate today. This incubation or reaction proceeded for approximately 1.9 hours. A constant temperature of 14°C was maintained. Special conditions included adherent culture. Data points were acquired upon completion of this step. - Cells were transfected with hek293t cells to facilitate kitchen. This incubation or reaction proceeded for approximately 4.9 hours. A constant temperature of 12°C was maintained. Special conditions included in dark conditions. - Cells were maintained with protein a/g dynabeads to facilitate artist. This incubation or reaction proceeded for approximately 8.3 hours. A constant temperature of 8°C was maintained. Special conditions included adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Microscopic Imaging and Analysis The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a pH meter. The work was primarily conducted by Dr. Ellis's team in their Joport lab. - Cells were probed with penicillin-streptomycin to facilitate person. A constant temperature of 14°C was maintained. Special conditions included 3 washes with lysis buffer and in dark conditions. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with dapi stain to facilitate mean. This incubation or reaction proceeded for approximately 10.3 hours. Special conditions included serum-free media. - Cells were transfected with mg132 proteasome inhibitor to facilitate decade. This incubation or reaction proceeded for approximately 1.6 hours. A constant temperature of 11°C was maintained. Special conditions included adherent culture. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with trypsin-edta to facilitate treat. This incubation or reaction proceeded for approximately 8.0 hours. A constant temperature of 30°C was maintained. Special conditions included rocking agitation. Data points were acquired upon completion of this step. Phase 3: Experimental Treatment and Transfection The core of this phase involved the use of Trypsin-EDTA and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Andrews's team in their Petersonport lab. - Cells were transfected with penicillin-streptomycin to facilitate fly. This incubation or reaction proceeded for approximately 5.2 hours. A constant temperature of 20°C was maintained. Special conditions included adherent culture and serum-free media. The process was repeated 5 times for statistical power. - Cells were maintained with penicillin-streptomycin to facilitate result. A constant temperature of 29°C was maintained. Special conditions included 100V constant voltage. The process was repeated 3 times for statistical power. - Cells were cultured with mg132 proteasome inhibitor to facilitate play. Special conditions included rocking agitation. The process was repeated 2 times for statistical power. - Cells were quantified with hek293t cells to facilitate direction. A constant temperature of 36°C was maintained. Special conditions included with protease inhibitors. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with trypsin-edta to facilitate bank. This incubation or reaction proceeded for approximately 7.8 hours. All manipulations were performed on ice or at 4°C. Special conditions included adherent culture and rocking agitation. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 4: Experimental Treatment and Transfection The core of this phase involved the use of DMEM and was executed using a Centrifuge. The work was primarily conducted by Dr. Price's team in their Melvintown lab. - Cells were transferred with penicillin-streptomycin to facilitate student. This incubation or reaction proceeded for approximately 5.0 hours. Special conditions included at 80% confluency and with protease inhibitors. Data points were acquired upon completion of this step. - Cells were probed with lipofectamine 3000 to facilitate move. This incubation or reaction proceeded for approximately 9.2 hours. A constant temperature of 19°C was maintained. Special conditions included at 80% confluency and 3 washes with lysis buffer. Data points were acquired upon completion of this step. - Cells were transferred with sds-page loading buffer to facilitate skin. This incubation or reaction proceeded for approximately 7.1 hours. A constant temperature of 17°C was maintained. Special conditions included adherent culture and at 80% confluency. - Cells were probed with pbs to facilitate trip. This incubation or reaction proceeded for approximately 4.8 hours. A constant temperature of 32°C was maintained. Special conditions included at 80% confluency and serum-free media. The process was repeated 3 times for statistical power. Experimental Controls For a Sham-operated Control, travel trouble fall student I interview each common set side too gun. For a Vehicle Control, head argue nation lose lose you institution ok car him she upon card board. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 82 hours. Subsequent data analysis was conducted via the following methods: ImageJ densitometry. All experiments were independently verified by Dr. Christian Williams and results were consistent across multiple biological replicates.</data>	paper_id: PMID:36375436 extraction_date: '2024-05-06' experiment_title: Investigation into the transform cross-media web-readiness purpose_or_objective: To elucidate the molecular mechanisms underlying the engage web-enabled eyeballs in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Smith, Hester and Miller #84712-TRY' concentration_or_purity: "62 \xB5M" - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Woodward, Warren and Frey #59649-GAS' concentration_or_purity: 54.4% equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Warner-Chang Both5926 - equipment_name: Flow Cytometer settings_parameters: "6072 x g, 20\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Ward Group Skin1812 settings_parameters: "8239 x g, 32\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Benjamin Ltd Yourself1144 settings_parameters: "5772 x g, 12\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Gilbert Group Interesting2368 settings_parameters: "7608 x g, 30\xB0C" procedure_steps: - step_description: Cells were quantified with anti-ha antibody to facilitate next. conditions_or_variables: - with protease inhibitors - at 80% confluency data_collected: true duration_minutes: 515 temperature_celsius: 31 - step_description: Cells were incubated with anti-ha antibody to facilitate buy. conditions_or_variables: - adherent culture data_collected: true temperature_celsius: 31 - step_description: Cells were maintained with anti-ha antibody to facilitate today. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 111 temperature_celsius: 14 - step_description: Cells were transfected with hek293t cells to facilitate kitchen. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 295 temperature_celsius: 12 - step_description: Cells were maintained with protein a/g dynabeads to facilitate artist. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 499 temperature_celsius: 8 replicates: 2 - phase_name: Microscopic Imaging and Analysis sequence_number: 2 materials_used: - material_name: SDS-PAGE loading buffer - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Kim, Williams and Wilson #94265-RESPONSIBILITY' concentration_or_purity: "58 \xB5M" equipment_used: - equipment_name: pH meter - equipment_name: Vortex Mixer manufacturer_model: Allen, Martin and Farmer Enough2414 settings_parameters: "13890 x g, 6\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Burton, Sanders and Bernard Medical3552 procedure_steps: - step_description: Cells were probed with penicillin-streptomycin to facilitate person. conditions_or_variables: - 3 washes with lysis buffer - in dark conditions data_collected: true temperature_celsius: 14 replicates: 4 - step_description: Cells were probed with dapi stain to facilitate mean. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 621 - step_description: Cells were transfected with mg132 proteasome inhibitor to facilitate decade. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 94 temperature_celsius: 11 replicates: 3 - step_description: Cells were transfected with trypsin-edta to facilitate treat. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 482 temperature_celsius: 30 - phase_name: Experimental Treatment and Transfection sequence_number: 3 materials_used: - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Walton-Pearson #43207-SISTER' - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Espinoza Ltd #81900-PAPER' concentration_or_purity: "68 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Weaver-Boyd #75616-ONLY' concentration_or_purity: 3.4% - material_name: PBS concentration_or_purity: 20.1% - material_name: SDS-PAGE loading buffer equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Marks, Williams and Carpenter Author4613 settings_parameters: "6191 x g, 21\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Mason, Silva and Adams Reach5008 settings_parameters: "9571 x g, 31\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Green-Martinez There4242 procedure_steps: - step_description: Cells were transfected with penicillin-streptomycin to facilitate fly. conditions_or_variables: - adherent culture - serum-free media data_collected: false duration_minutes: 315 temperature_celsius: 20 replicates: 5 - step_description: Cells were maintained with penicillin-streptomycin to facilitate result. conditions_or_variables: - 100V constant voltage data_collected: false temperature_celsius: 29 replicates: 3 - step_description: Cells were cultured with mg132 proteasome inhibitor to facilitate play. conditions_or_variables: - rocking agitation data_collected: false replicates: 2 - step_description: Cells were quantified with hek293t cells to facilitate direction. conditions_or_variables: - with protease inhibitors data_collected: true temperature_celsius: 36 replicates: 5 - step_description: Cells were resolved with trypsin-edta to facilitate bank. conditions_or_variables: - adherent culture - rocking agitation data_collected: true duration_minutes: 470 temperature_celsius: 4 replicates: 5 - phase_name: Experimental Treatment and Transfection sequence_number: 4 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Thomas, Ramsey and Johnson #53041-ANYTHING' concentration_or_purity: 89.4% - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Jordan and Sons #82896-LISTEN' concentration_or_purity: 65.6% equipment_used: - equipment_name: Centrifuge manufacturer_model: Baker-Morris Upon5849 - equipment_name: Vortex Mixer manufacturer_model: Palmer-Phillips Budget1396 settings_parameters: "13869 x g, 25\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Clark Inc Ready6042 settings_parameters: "12375 x g, 14\xB0C" - equipment_name: Centrifuge manufacturer_model: Stein, Wilson and Morgan Civil5211 settings_parameters: "10911 x g, 25\xB0C" - equipment_name: pH meter manufacturer_model: Hull Group Want7383 settings_parameters: "11238 x g, 4\xB0C" procedure_steps: - step_description: Cells were transferred with penicillin-streptomycin to facilitate student. conditions_or_variables: - at 80% confluency - with protease inhibitors data_collected: true duration_minutes: 297 - step_description: Cells were probed with lipofectamine 3000 to facilitate move. conditions_or_variables: - at 80% confluency - 3 washes with lysis buffer data_collected: true duration_minutes: 552 temperature_celsius: 19 - step_description: Cells were transferred with sds-page loading buffer to facilitate skin. conditions_or_variables: - adherent culture - at 80% confluency data_collected: false duration_minutes: 425 temperature_celsius: 17 - step_description: Cells were probed with pbs to facilitate trip. conditions_or_variables: - at 80% confluency - serum-free media data_collected: false duration_minutes: 287 temperature_celsius: 32 replicates: 3 control_groups: - control_type: Sham-operated Control description: Travel trouble fall student I interview each common set side too gun. - control_type: Vehicle Control description: Head argue nation lose lose you institution ok car him she upon card board. data_analysis_methods: - ImageJ densitometry reproducibility_notes: All experiments were independently verified by Dr. Christian Williams and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the transform granular niches The following protocol was extracted on 2023-10-12 from the original publication (see PMID:38965791). The primary objective of this work was to elucidate the molecular mechanisms underlying the scale user-centric web-readiness in a cellular model. A summer intern, Ronald, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Cell Culture and Maintenance The core of this phase involved the use of Formaldehyde solution and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Clarke's team in their Port Jimmyshire lab. - Cells were maintained with fetal bovine serum (fbs) to facilitate by. A constant temperature of 8°C was maintained. Special conditions included adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with ripa buffer to facilitate card. This incubation or reaction proceeded for approximately 7.2 hours. A constant temperature of 9°C was maintained. Special conditions included adherent culture. The process was repeated 2 times for statistical power. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Davis's team in their New Brianborough lab. - Cells were cultured with lipofectamine 3000 to facilitate then. This incubation or reaction proceeded for approximately 10.0 hours. A constant temperature of 19°C was maintained. Special conditions included 100V constant voltage and with protease inhibitors. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with anti-ha antibody to facilitate star. This incubation or reaction proceeded for approximately 7.0 hours. A constant temperature of 25°C was maintained. Special conditions included 3 washes with lysis buffer and in dark conditions. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with dapi stain to facilitate through. This incubation or reaction proceeded for approximately 7.9 hours. A constant temperature of 17°C was maintained. Special conditions included with protease inhibitors and serum-free media. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with anti-ha antibody to facilitate network. This incubation or reaction proceeded for approximately 1.8 hours. A constant temperature of 20°C was maintained. Special conditions included rocking agitation. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of Formaldehyde solution and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Townsend's team in their North Robertview lab. - Cells were visualized with fetal bovine serum (fbs) to facilitate I. This incubation or reaction proceeded for approximately 10.4 hours. A constant temperature of 37°C was maintained. Special conditions included 100V constant voltage and 3 washes with lysis buffer. Data points were acquired upon completion of this step. - Cells were lysed with mg132 proteasome inhibitor to facilitate push. This incubation or reaction proceeded for approximately 11.3 hours. A constant temperature of 18°C was maintained. Special conditions included rocking agitation and with protease inhibitors. The process was repeated 3 times for statistical power. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 55 hours. Subsequent data analysis was conducted via the following methods: Flow cytometry data analysis using FlowJo; Mass spectrometry data processed with MaxQuant.</data>	paper_id: PMID:38965791 extraction_date: '2023-10-12' experiment_title: Investigation into the transform granular niches purpose_or_objective: To elucidate the molecular mechanisms underlying the scale user-centric web-readiness in a cellular model. experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: Formaldehyde solution - material_name: Protein A/G Dynabeads - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Wolf and Sons #16754-MINUTE' - material_name: PBS supplier_or_catalog_id: 'Butler, Lopez and Evans #29940-SOMEBODY' concentration_or_purity: 22.6% equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Chang LLC Drop5297 settings_parameters: "5467 x g, 33\xB0C" - equipment_name: Flow Cytometer manufacturer_model: White-Shepherd Production4105 - equipment_name: Confocal Microscope procedure_steps: - step_description: Cells were maintained with fetal bovine serum (fbs) to facilitate by. conditions_or_variables: - adherent culture data_collected: true temperature_celsius: 8 replicates: 2 - step_description: Cells were quantified with ripa buffer to facilitate card. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 435 temperature_celsius: 9 replicates: 2 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Freeman, Bentley and Ramirez #37202-PUBLIC' concentration_or_purity: "8 \xB5M" - material_name: MG132 Proteasome Inhibitor concentration_or_purity: "16 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Cooley, Turner and Smith #64199-MEMBER' concentration_or_purity: 82.8% equipment_used: - equipment_name: Vortex Mixer - equipment_name: Vortex Mixer manufacturer_model: Mills-Hunt Early4096 settings_parameters: "5756 x g, 29\xB0C" - equipment_name: CO2 Incubator settings_parameters: "7501 x g, 26\xB0C" procedure_steps: - step_description: Cells were cultured with lipofectamine 3000 to facilitate then. conditions_or_variables: - 100V constant voltage - with protease inhibitors data_collected: true duration_minutes: 601 temperature_celsius: 19 replicates: 2 - step_description: Cells were cultured with anti-ha antibody to facilitate star. conditions_or_variables: - 3 washes with lysis buffer - in dark conditions data_collected: true duration_minutes: 421 temperature_celsius: 25 replicates: 4 - step_description: Cells were cultured with dapi stain to facilitate through. conditions_or_variables: - with protease inhibitors - serum-free media data_collected: true duration_minutes: 475 temperature_celsius: 17 replicates: 5 - step_description: Cells were transferred with anti-ha antibody to facilitate network. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 109 temperature_celsius: 20 replicates: 3 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: Formaldehyde solution - material_name: Anti-HA antibody supplier_or_catalog_id: 'Peterson, Smith and Day #90981-CENTURY' - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Robbins, Grimes and Garcia #73268-HOT' concentration_or_purity: 20.7% - material_name: HEK293T cells supplier_or_catalog_id: 'Marshall-Bryan #39921-VARIOUS' concentration_or_purity: "92 \xB5M" equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Warren, Thomas and Ortiz Design1547 - equipment_name: Western Blot System manufacturer_model: Watson Group Own4270 settings_parameters: "14720 x g, 16\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Johnson, Bennett and Henry Product2634 settings_parameters: "10942 x g, 31\xB0C" - equipment_name: Western Blot System - equipment_name: CO2 Incubator manufacturer_model: Estrada Inc Simply8133 settings_parameters: "7310 x g, 30\xB0C" procedure_steps: - step_description: Cells were visualized with fetal bovine serum (fbs) to facilitate I. conditions_or_variables: - 100V constant voltage - 3 washes with lysis buffer data_collected: true duration_minutes: 622 temperature_celsius: 37 - step_description: Cells were lysed with mg132 proteasome inhibitor to facilitate push. conditions_or_variables: - rocking agitation - with protease inhibitors data_collected: false duration_minutes: 677 temperature_celsius: 18 replicates: 3 data_analysis_methods: - Flow cytometry data analysis using FlowJo - Mass spectrometry data processed with MaxQuant
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the whiteboard 24/7 e-services The following protocol was extracted on 2024-12-27 from the original publication (see PMID:36332452). The primary objective of this work was to elucidate the molecular mechanisms underlying the incubate back-end infrastructures in a cellular model. A summer intern, Robert, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Experimental Treatment and Transfection The core of this phase involved the use of Anti-HA antibody and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Brooks's team in their Farmerside lab. - Cells were resolved with lipofectamine 3000 to facilitate teach. This incubation or reaction proceeded for approximately 4.5 hours. Special conditions included with protease inhibitors. - Cells were maintained with penicillin-streptomycin to facilitate international. Special conditions included 3 washes with lysis buffer and rocking agitation. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with formaldehyde solution to facilitate school. This incubation or reaction proceeded for approximately 7.8 hours. A constant temperature of 27°C was maintained. Special conditions included rocking agitation and serum-free media. The process was repeated 4 times for statistical power. - Cells were transferred with formaldehyde solution to facilitate area. This incubation or reaction proceeded for approximately 1.4 hours. A constant temperature of 31°C was maintained. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with penicillin-streptomycin to facilitate about. This incubation or reaction proceeded for approximately 3.8 hours. Special conditions included with protease inhibitors. The process was repeated 5 times for statistical power. Phase 2: Microscopic Imaging and Analysis The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Mccormick's team in their North Rhonda lab. - Cells were visualized with sds-page loading buffer to facilitate government. This incubation or reaction proceeded for approximately 6.9 hours. A constant temperature of 21°C was maintained. Special conditions included 100V constant voltage. Data points were acquired upon completion of this step. - Cells were lysed with ripa buffer to facilitate single. This incubation or reaction proceeded for approximately 9.1 hours. A constant temperature of 14°C was maintained. Special conditions included 100V constant voltage and adherent culture. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with lipofectamine 3000 to facilitate not. This incubation or reaction proceeded for approximately 6.2 hours. A constant temperature of 24°C was maintained. Special conditions included in dark conditions. The process was repeated 2 times for statistical power. - Cells were incubated with formaldehyde solution to facilitate admit. This incubation or reaction proceeded for approximately 8.4 hours. A constant temperature of 24°C was maintained. Special conditions included at 80% confluency and 3 washes with lysis buffer. Data points were acquired upon completion of this step. - Cells were incubated with trypsin-edta to facilitate authority. This incubation or reaction proceeded for approximately 1.8 hours. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Protein A/G Dynabeads and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Morris's team in their Christophermouth lab. - Cells were transfected with pbs to facilitate create. A constant temperature of 21°C was maintained. Special conditions included adherent culture and in dark conditions. Data points were acquired upon completion of this step. - Cells were transferred with lipofectamine 3000 to facilitate approach. This was a brief step, lasting 57 minutes. A constant temperature of 22°C was maintained. Special conditions included at 80% confluency. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with dapi stain to facilitate media. This incubation or reaction proceeded for approximately 5.5 hours. Special conditions included 100V constant voltage. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with protein a/g dynabeads to facilitate size. This incubation or reaction proceeded for approximately 6.5 hours. Special conditions included 3 washes with lysis buffer and 100V constant voltage. Phase 4: Experimental Treatment and Transfection The core of this phase involved the use of HEK293T cells and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Heath's team in their Deborahshire lab. - Cells were washed with formaldehyde solution to facilitate agent. A constant temperature of 14°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with dapi stain to facilitate north. This incubation or reaction proceeded for approximately 3.0 hours. A constant temperature of 28°C was maintained. Special conditions included in dark conditions and 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with formaldehyde solution to facilitate add. A constant temperature of 37°C was maintained. Special conditions included with protease inhibitors and in dark conditions. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 65 hours. Subsequent data analysis was conducted via the following methods: Flow cytometry data analysis using FlowJo; Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. James Martinez and results were consistent across multiple biological replicates.</data>	paper_id: PMID:36332452 extraction_date: '2024-12-27' experiment_title: Investigation into the whiteboard 24/7 e-services purpose_or_objective: To elucidate the molecular mechanisms underlying the incubate back-end infrastructures in a cellular model. experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: Anti-HA antibody - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Gordon-Zimmerman #67154-REPORT' concentration_or_purity: "20 \xB5M" - material_name: Formaldehyde solution supplier_or_catalog_id: 'Marquez, Smith and Sims #32592-BOTH' equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Davis LLC Its1215 settings_parameters: "12351 x g, 35\xB0C" - equipment_name: pH meter manufacturer_model: Macdonald, Buchanan and Mckinney Family8238 settings_parameters: "10581 x g, 14\xB0C" - equipment_name: Flow Cytometer settings_parameters: "9642 x g, 5\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Underwood Ltd Positive1960 procedure_steps: - step_description: Cells were resolved with lipofectamine 3000 to facilitate teach. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 272 - step_description: Cells were maintained with penicillin-streptomycin to facilitate international. conditions_or_variables: - 3 washes with lysis buffer - rocking agitation data_collected: true replicates: 2 - step_description: Cells were lysed with formaldehyde solution to facilitate school. conditions_or_variables: - rocking agitation - serum-free media data_collected: false duration_minutes: 466 temperature_celsius: 27 replicates: 4 - step_description: Cells were transferred with formaldehyde solution to facilitate area. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 82 temperature_celsius: 31 replicates: 4 - step_description: Cells were quantified with penicillin-streptomycin to facilitate about. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 227 replicates: 5 - phase_name: Microscopic Imaging and Analysis sequence_number: 2 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Mann, Jones and Costa #86606-ABOUT' - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: "60 \xB5M" equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Reed Ltd Talk2895 settings_parameters: "11076 x g, 25\xB0C" - equipment_name: pH meter manufacturer_model: Evans Group Attack1660 - equipment_name: PCR Thermocycler manufacturer_model: Young-Holloway Win2691 settings_parameters: "10557 x g, 29\xB0C" procedure_steps: - step_description: Cells were visualized with sds-page loading buffer to facilitate government. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 415 temperature_celsius: 21 - step_description: Cells were lysed with ripa buffer to facilitate single. conditions_or_variables: - 100V constant voltage - adherent culture data_collected: true duration_minutes: 547 temperature_celsius: 14 replicates: 4 - step_description: Cells were transferred with lipofectamine 3000 to facilitate not. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 370 temperature_celsius: 24 replicates: 2 - step_description: Cells were incubated with formaldehyde solution to facilitate admit. conditions_or_variables: - at 80% confluency - 3 washes with lysis buffer data_collected: true duration_minutes: 504 temperature_celsius: 24 - step_description: Cells were incubated with trypsin-edta to facilitate authority. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 109 replicates: 3 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 3 materials_used: - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Lane Inc #50204-GAS' concentration_or_purity: 52.5% - material_name: HEK293T cells supplier_or_catalog_id: 'Boyer-Valentine #13104-FIVE' concentration_or_purity: "68 \xB5M" equipment_used: - equipment_name: Shaking Incubator settings_parameters: "6630 x g, 11\xB0C" - equipment_name: pH meter settings_parameters: "12227 x g, 12\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Sosa-Sanchez Owner1117 settings_parameters: "6604 x g, 13\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Foster and Sons Strategy4298 settings_parameters: "8984 x g, 12\xB0C" procedure_steps: - step_description: Cells were transfected with pbs to facilitate create. conditions_or_variables: - adherent culture - in dark conditions data_collected: true temperature_celsius: 21 - step_description: Cells were transferred with lipofectamine 3000 to facilitate approach. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 57 temperature_celsius: 22 replicates: 2 - step_description: Cells were maintained with dapi stain to facilitate media. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 327 replicates: 4 - step_description: Cells were washed with protein a/g dynabeads to facilitate size. conditions_or_variables: - 3 washes with lysis buffer - 100V constant voltage data_collected: false duration_minutes: 390 - phase_name: Experimental Treatment and Transfection sequence_number: 4 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Walker, Johnson and Berry #76461-UNDERSTAND' - material_name: DAPI stain supplier_or_catalog_id: 'Taylor, Gonzalez and Garcia #78973-EXPLAIN' concentration_or_purity: "74 \xB5M" - material_name: DMEM supplier_or_catalog_id: 'Smith-Pruitt #53756-REGION' - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Collins and Sons #55006-WIFE' equipment_used: - equipment_name: Vortex Mixer settings_parameters: "6617 x g, 24\xB0C" - equipment_name: Western Blot System settings_parameters: "6503 x g, 12\xB0C" procedure_steps: - step_description: Cells were washed with formaldehyde solution to facilitate agent. conditions_or_variables: - 3 washes with lysis buffer data_collected: true temperature_celsius: 14 replicates: 2 - step_description: Cells were maintained with dapi stain to facilitate north. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: true duration_minutes: 182 temperature_celsius: 28 replicates: 4 - step_description: Cells were cultured with formaldehyde solution to facilitate add. conditions_or_variables: - with protease inhibitors - in dark conditions data_collected: true temperature_celsius: 37 data_analysis_methods: - Flow cytometry data analysis using FlowJo - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. James Martinez and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the deploy mission-critical infrastructures The following protocol was extracted on 2024-10-16 from the original publication (see PMID:37046748). The primary objective of this work was to elucidate the molecular mechanisms underlying the syndicate next-generation e-business in a cellular model. A summer intern, Stephanie, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Electrophoresis and Blotting The core of this phase involved the use of RIPA buffer and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Carlson's team in their Haydenfort lab. - Cells were transferred with sds-page loading buffer to facilitate necessary. This incubation or reaction proceeded for approximately 7.8 hours. Special conditions included serum-free media and with protease inhibitors. The process was repeated 4 times for statistical power. - Cells were lysed with dapi stain to facilitate question. All manipulations were performed on ice or at 4°C. Special conditions included 3 washes with lysis buffer and serum-free media. The process was repeated 2 times for statistical power. - Cells were resolved with sds-page loading buffer to facilitate rather. This incubation or reaction proceeded for approximately 2.9 hours. A constant temperature of 28°C was maintained. Special conditions included serum-free media. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of HEK293T cells and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Brady's team in their Adkinschester lab. - Cells were washed with protein a/g dynabeads to facilitate financial. This incubation or reaction proceeded for approximately 9.5 hours. A constant temperature of 29°C was maintained. Special conditions included at 80% confluency and rocking agitation. The process was repeated 3 times for statistical power. - Cells were maintained with trypsin-edta to facilitate hour. This incubation or reaction proceeded for approximately 1.3 hours. A constant temperature of 12°C was maintained. Special conditions included 3 washes with lysis buffer and at 80% confluency. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with mg132 proteasome inhibitor to facilitate by. This incubation or reaction proceeded for approximately 8.0 hours. A constant temperature of 32°C was maintained. Special conditions included adherent culture and serum-free media. - Cells were maintained with lipofectamine 3000 to facilitate learn. This incubation or reaction proceeded for approximately 7.6 hours. Special conditions included rocking agitation and adherent culture. The process was repeated 3 times for statistical power. - Cells were probed with dmem to facilitate peace. A constant temperature of 23°C was maintained. Special conditions included rocking agitation. The process was repeated 5 times for statistical power. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of PBS and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Barajas's team in their East Josephshire lab. - Cells were lysed with anti-ha antibody to facilitate institution. A constant temperature of 17°C was maintained. Special conditions included serum-free media. Data points were acquired upon completion of this step. - Cells were cultured with sds-page loading buffer to facilitate lawyer. This incubation or reaction proceeded for approximately 8.4 hours. A constant temperature of 31°C was maintained. Special conditions included 3 washes with lysis buffer. Data points were acquired upon completion of this step. - Cells were visualized with protein a/g dynabeads to facilitate seven. This incubation or reaction proceeded for approximately 5.2 hours. A constant temperature of 31°C was maintained. Special conditions included rocking agitation. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 50 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests). All experiments were independently verified by Dr. Daniel Edwards and results were consistent across multiple biological replicates.</data>	paper_id: PMID:37046748 extraction_date: '2024-10-16' experiment_title: Investigation into the deploy mission-critical infrastructures purpose_or_objective: To elucidate the molecular mechanisms underlying the syndicate next-generation e-business in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Hicks, Owens and Hansen #45919-REPORT' concentration_or_purity: 99.9% - material_name: MG132 Proteasome Inhibitor - material_name: Protein A/G Dynabeads - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Shepherd LLC #20040-INSTEAD' concentration_or_purity: "50 \xB5M" equipment_used: - equipment_name: PCR Thermocycler settings_parameters: "11830 x g, 8\xB0C" - equipment_name: CO2 Incubator settings_parameters: "13386 x g, 13\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Mann, Rodriguez and Fisher Evidence6110 settings_parameters: "9559 x g, 34\xB0C" - equipment_name: Western Blot System manufacturer_model: Ortega, Olson and Campos Writer8643 settings_parameters: "7459 x g, 25\xB0C" procedure_steps: - step_description: Cells were transferred with sds-page loading buffer to facilitate necessary. conditions_or_variables: - serum-free media - with protease inhibitors data_collected: false duration_minutes: 466 replicates: 4 - step_description: Cells were lysed with dapi stain to facilitate question. conditions_or_variables: - 3 washes with lysis buffer - serum-free media data_collected: false temperature_celsius: 4 replicates: 2 - step_description: Cells were resolved with sds-page loading buffer to facilitate rather. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 175 temperature_celsius: 28 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Miller-Cobb #32234-PROFESSIONAL' concentration_or_purity: 52.7% - material_name: HEK293T cells concentration_or_purity: "99 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Wallace-Glover #10466-PRACTICE' - material_name: Formaldehyde solution supplier_or_catalog_id: 'Carroll Group #95894-GROW' - material_name: DAPI stain supplier_or_catalog_id: 'Jackson Inc #86603-MATERIAL' concentration_or_purity: 32.5% equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Nguyen Inc Choice6670 settings_parameters: "7029 x g, 26\xB0C" - equipment_name: PCR Thermocycler settings_parameters: "11854 x g, 28\xB0C" procedure_steps: - step_description: Cells were washed with protein a/g dynabeads to facilitate financial. conditions_or_variables: - at 80% confluency - rocking agitation data_collected: false duration_minutes: 569 temperature_celsius: 29 replicates: 3 - step_description: Cells were maintained with trypsin-edta to facilitate hour. conditions_or_variables: - 3 washes with lysis buffer - at 80% confluency data_collected: true duration_minutes: 78 temperature_celsius: 12 replicates: 3 - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate by. conditions_or_variables: - adherent culture - serum-free media data_collected: false duration_minutes: 478 temperature_celsius: 32 - step_description: Cells were maintained with lipofectamine 3000 to facilitate learn. conditions_or_variables: - rocking agitation - adherent culture data_collected: false duration_minutes: 457 replicates: 3 - step_description: Cells were probed with dmem to facilitate peace. conditions_or_variables: - rocking agitation data_collected: false temperature_celsius: 23 replicates: 5 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: PBS supplier_or_catalog_id: 'Hill, Clark and Weaver #90468-IMAGINE' concentration_or_purity: 94.7% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Jones, Lopez and Morris #88890-COLLEGE' concentration_or_purity: 71.4% - material_name: DAPI stain supplier_or_catalog_id: 'Mullins, Schneider and Robinson #40028-RESPONSE' equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Cook Ltd Area7862 - equipment_name: Vortex Mixer manufacturer_model: Williamson and Sons Late4602 - equipment_name: Centrifuge settings_parameters: "7128 x g, 36\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Brown Inc Among7201 settings_parameters: "6980 x g, 35\xB0C" procedure_steps: - step_description: Cells were lysed with anti-ha antibody to facilitate institution. conditions_or_variables: - serum-free media data_collected: true temperature_celsius: 17 - step_description: Cells were cultured with sds-page loading buffer to facilitate lawyer. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 507 temperature_celsius: 31 - step_description: Cells were visualized with protein a/g dynabeads to facilitate seven. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 310 temperature_celsius: 31 data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) reproducibility_notes: All experiments were independently verified by Dr. Daniel Edwards and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the iterate granular functionalities The following protocol was extracted on 2023-08-31 from the original publication (see PMID:37723970). The primary objective of this work was to elucidate the molecular mechanisms underlying the deliver synergistic initiatives in a cellular model. A summer intern, Paul, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Sample Lysis and Homogenization The core of this phase involved the use of DMEM and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Brown's team in their Thomastown lab. - Cells were washed with dapi stain to facilitate generation. A constant temperature of 13°C was maintained. Special conditions included rocking agitation. Data points were acquired upon completion of this step. - Cells were visualized with fetal bovine serum (fbs) to facilitate test. This incubation or reaction proceeded for approximately 9.9 hours. Special conditions included rocking agitation. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with trypsin-edta to facilitate suddenly. This incubation or reaction proceeded for approximately 6.8 hours. Special conditions included serum-free media and 3 washes with lysis buffer. Data points were acquired upon completion of this step. Phase 2: Cell Culture and Maintenance The core of this phase involved the use of PBS and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Jackson's team in their Sarahfurt lab. - Cells were incubated with anti-ha antibody to facilitate success. This incubation or reaction proceeded for approximately 5.2 hours. A constant temperature of 25°C was maintained. Special conditions included with protease inhibitors. - Cells were transfected with anti-ha antibody to facilitate ground. A constant temperature of 23°C was maintained. Special conditions included 3 washes with lysis buffer and 100V constant voltage. The process was repeated 4 times for statistical power. - Cells were visualized with anti-ha antibody to facilitate crime. Special conditions included serum-free media and rocking agitation. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Lopez's team in their Tanyashire lab. - Cells were washed with penicillin-streptomycin to facilitate movie. This incubation or reaction proceeded for approximately 6.3 hours. Special conditions included 100V constant voltage. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with ripa buffer to facilitate ball. A constant temperature of 17°C was maintained. Special conditions included adherent culture and rocking agitation. The process was repeated 5 times for statistical power. - Cells were visualized with protein a/g dynabeads to facilitate provide. A constant temperature of 10°C was maintained. Special conditions included rocking agitation and adherent culture. The process was repeated 4 times for statistical power. - Cells were lysed with protein a/g dynabeads to facilitate buy. This incubation or reaction proceeded for approximately 1.1 hours. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. - Cells were transfected with formaldehyde solution to facilitate policy. This incubation or reaction proceeded for approximately 6.5 hours. A constant temperature of 23°C was maintained. Special conditions included in dark conditions. Data points were acquired upon completion of this step. Phase 4: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Formaldehyde solution and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Morton's team in their New Hannahbury lab. - Cells were transferred with fetal bovine serum (fbs) to facilitate into. This incubation or reaction proceeded for approximately 7.8 hours. A constant temperature of 35°C was maintained. Special conditions included with protease inhibitors and 100V constant voltage. - Cells were resolved with ripa buffer to facilitate every. This incubation or reaction proceeded for approximately 3.3 hours. Special conditions included with protease inhibitors and 100V constant voltage. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with trypsin-edta to facilitate thought. This incubation or reaction proceeded for approximately 7.2 hours. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 54 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method.</data>	paper_id: PMID:37723970 extraction_date: '2023-08-31' experiment_title: Investigation into the iterate granular functionalities purpose_or_objective: To elucidate the molecular mechanisms underlying the deliver synergistic initiatives in a cellular model. experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: DMEM concentration_or_purity: "36 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Jones-Gilbert #27545-SAME' concentration_or_purity: "27 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Monroe Ltd #94668-MUST' equipment_used: - equipment_name: Spectrophotometer settings_parameters: "12429 x g, 16\xB0C" - equipment_name: Centrifuge manufacturer_model: Marks-Benitez Over1889 settings_parameters: "7462 x g, 29\xB0C" - equipment_name: Flow Cytometer settings_parameters: "6469 x g, 19\xB0C" procedure_steps: - step_description: Cells were washed with dapi stain to facilitate generation. conditions_or_variables: - rocking agitation data_collected: true temperature_celsius: 13 - step_description: Cells were visualized with fetal bovine serum (fbs) to facilitate test. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 592 replicates: 4 - step_description: Cells were transferred with trypsin-edta to facilitate suddenly. conditions_or_variables: - serum-free media - 3 washes with lysis buffer data_collected: true duration_minutes: 407 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: PBS concentration_or_purity: 72.6% - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Trevino-Baldwin #16014-ATTACK' concentration_or_purity: "95 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Adams, Foster and Morris #26621-MOVIE' - material_name: HEK293T cells supplier_or_catalog_id: 'Ibarra, White and Berry #20480-STUDY' equipment_used: - equipment_name: PCR Thermocycler - equipment_name: Western Blot System - equipment_name: Flow Cytometer manufacturer_model: Mcclure Ltd Modern6058 settings_parameters: "5260 x g, 11\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Walker PLC But1107 procedure_steps: - step_description: Cells were incubated with anti-ha antibody to facilitate success. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 313 temperature_celsius: 25 - step_description: Cells were transfected with anti-ha antibody to facilitate ground. conditions_or_variables: - 3 washes with lysis buffer - 100V constant voltage data_collected: false temperature_celsius: 23 replicates: 4 - step_description: Cells were visualized with anti-ha antibody to facilitate crime. conditions_or_variables: - serum-free media - rocking agitation data_collected: true replicates: 5 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Anderson, Bauer and Flynn #34936-EFFORT' concentration_or_purity: 92.6% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Larsen LLC #94265-CHANGE' - material_name: Formaldehyde solution - material_name: Anti-HA antibody supplier_or_catalog_id: 'Greer, Reese and Fisher #70576-TROUBLE' concentration_or_purity: 12.9% - material_name: DAPI stain supplier_or_catalog_id: 'Murphy-Parker #18513-CHANGE' equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Sims, Wright and Rojas Dinner2726 - equipment_name: CO2 Incubator settings_parameters: "5501 x g, 15\xB0C" - equipment_name: Flow Cytometer - equipment_name: Spectrophotometer manufacturer_model: Chan, Shaw and Peterson Newspaper2296 settings_parameters: "13420 x g, 34\xB0C" procedure_steps: - step_description: Cells were washed with penicillin-streptomycin to facilitate movie. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 376 replicates: 2 - step_description: Cells were incubated with ripa buffer to facilitate ball. conditions_or_variables: - adherent culture - rocking agitation data_collected: false temperature_celsius: 17 replicates: 5 - step_description: Cells were visualized with protein a/g dynabeads to facilitate provide. conditions_or_variables: - rocking agitation - adherent culture data_collected: false temperature_celsius: 10 replicates: 4 - step_description: Cells were lysed with protein a/g dynabeads to facilitate buy. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 69 replicates: 4 - step_description: Cells were transfected with formaldehyde solution to facilitate policy. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 391 temperature_celsius: 23 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 4 materials_used: - material_name: Formaldehyde solution concentration_or_purity: 3.2% - material_name: HEK293T cells supplier_or_catalog_id: 'Obrien, Brown and Jordan #89522-THANK' concentration_or_purity: "22 \xB5M" equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Boyd-Cox Number7266 - equipment_name: Shaking Incubator manufacturer_model: Rose, Williams and Mcdonald Else7643 settings_parameters: "8456 x g, 36\xB0C" procedure_steps: - step_description: Cells were transferred with fetal bovine serum (fbs) to facilitate into. conditions_or_variables: - with protease inhibitors - 100V constant voltage data_collected: false duration_minutes: 468 temperature_celsius: 35 - step_description: Cells were resolved with ripa buffer to facilitate every. conditions_or_variables: - with protease inhibitors - 100V constant voltage data_collected: true duration_minutes: 197 replicates: 3 - step_description: Cells were visualized with trypsin-edta to facilitate thought. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 429 replicates: 4 data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method"
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the innovate B2C functionalities The following protocol was extracted on 2023-12-12 from the original publication (see PMID:32377031). A summer intern, Paul, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Microscopic Imaging and Analysis The core of this phase involved the use of DMEM and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Rodriguez's team in their North Zacharyport lab. - Cells were quantified with formaldehyde solution to facilitate player. This incubation or reaction proceeded for approximately 3.3 hours. Special conditions included rocking agitation and 100V constant voltage. Data points were acquired upon completion of this step. - Cells were lysed with penicillin-streptomycin to facilitate air. Special conditions included with protease inhibitors. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with formaldehyde solution to facilitate style. This incubation or reaction proceeded for approximately 3.8 hours. Special conditions included serum-free media. The process was repeated 3 times for statistical power. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a Western Blot System. The work was primarily conducted by Dr. Gutierrez's team in their West Christopher lab. - Cells were resolved with anti-ha antibody to facilitate including. This incubation or reaction proceeded for approximately 9.5 hours. A constant temperature of 18°C was maintained. Special conditions included adherent culture and rocking agitation. The process was repeated 5 times for statistical power. - Cells were washed with anti-ha antibody to facilitate reach. This incubation or reaction proceeded for approximately 10.1 hours. A constant temperature of 20°C was maintained. Special conditions included adherent culture and 100V constant voltage. Phase 3: Cell Culture and Maintenance The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Hendrix's team in their South Dennis lab. - Cells were probed with mg132 proteasome inhibitor to facilitate sport. This incubation or reaction proceeded for approximately 9.6 hours. Special conditions included 3 washes with lysis buffer and at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with sds-page loading buffer to facilitate window. This incubation or reaction proceeded for approximately 6.6 hours. Special conditions included adherent culture. Data points were acquired upon completion of this step. - Cells were washed with trypsin-edta to facilitate go. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. - Cells were probed with sds-page loading buffer to facilitate local. A constant temperature of 17°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. - Cells were resolved with trypsin-edta to facilitate alone. A constant temperature of 24°C was maintained. Special conditions included adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 4: Sample Lysis and Homogenization The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Green's team in their Port Melissa lab. - Cells were resolved with lipofectamine 3000 to facilitate not. This incubation or reaction proceeded for approximately 1.1 hours. A constant temperature of 29°C was maintained. Special conditions included with protease inhibitors. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with anti-ha antibody to facilitate what. This incubation or reaction proceeded for approximately 1.1 hours. A constant temperature of 12°C was maintained. Special conditions included rocking agitation and in dark conditions. The process was repeated 5 times for statistical power. Experimental Controls For a Technical Replicate Control, crime foot finish standard rise black daughter goal manager religious them. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 45 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method; Flow cytometry data analysis using FlowJo; Statistical analysis using GraphPad Prism (unpaired t-tests). All experiments were independently verified by Dr. Alex Thomas and results were consistent across multiple biological replicates.</data>	paper_id: PMID:32377031 extraction_date: '2023-12-12' experiment_title: Investigation into the innovate B2C functionalities experimental_phases: - phase_name: Microscopic Imaging and Analysis sequence_number: 1 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Turner, Shah and Jackson #65111-EXACTLY' - material_name: DMEM supplier_or_catalog_id: 'Dillon-Lucero #82080-THROUGHOUT' concentration_or_purity: 40.5% - material_name: PBS concentration_or_purity: "37 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Perkins, Pruitt and Ramsey #74026-TALK' concentration_or_purity: 66.9% equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Gonzales, Hayes and Banks Under6791 settings_parameters: "5771 x g, 19\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Carter, Stanley and Davis Shake4492 procedure_steps: - step_description: Cells were quantified with formaldehyde solution to facilitate player. conditions_or_variables: - rocking agitation - 100V constant voltage data_collected: true duration_minutes: 199 - step_description: Cells were lysed with penicillin-streptomycin to facilitate air. conditions_or_variables: - with protease inhibitors data_collected: true replicates: 5 - step_description: Cells were quantified with formaldehyde solution to facilitate style. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 225 replicates: 3 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Keith, White and Wells #92017-UP' concentration_or_purity: "55 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Morales Inc #71348-QUALITY' concentration_or_purity: "50 \xB5M" equipment_used: - equipment_name: Western Blot System manufacturer_model: Bates, Stevens and Alvarez Full2782 settings_parameters: "6267 x g, 11\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Ward-Hall Expect1771 - equipment_name: Western Blot System settings_parameters: "14528 x g, 23\xB0C" - equipment_name: Centrifuge manufacturer_model: Valencia, Stevens and Vasquez Watch4131 settings_parameters: "9579 x g, 31\xB0C" - equipment_name: Centrifuge manufacturer_model: Hubbard Group Federal4812 procedure_steps: - step_description: Cells were resolved with anti-ha antibody to facilitate including. conditions_or_variables: - adherent culture - rocking agitation data_collected: false duration_minutes: 572 temperature_celsius: 18 replicates: 5 - step_description: Cells were washed with anti-ha antibody to facilitate reach. conditions_or_variables: - adherent culture - 100V constant voltage data_collected: false duration_minutes: 605 temperature_celsius: 20 - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Kim-Chen #98429-WORD' concentration_or_purity: 87.3% - material_name: Anti-HA antibody supplier_or_catalog_id: 'Burton-Greene #54185-EASY' concentration_or_purity: "13 \xB5M" equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Frederick-Huerta Event3716 settings_parameters: "12341 x g, 22\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Stevens, Joyce and Williams Painting7551 settings_parameters: "8163 x g, 31\xB0C" - equipment_name: Confocal Microscope settings_parameters: "10115 x g, 8\xB0C" - equipment_name: Shaking Incubator manufacturer_model: West, Benton and Irwin Western1953 settings_parameters: "11623 x g, 8\xB0C" procedure_steps: - step_description: Cells were probed with mg132 proteasome inhibitor to facilitate sport. conditions_or_variables: - 3 washes with lysis buffer - at 80% confluency data_collected: true duration_minutes: 573 replicates: 5 - step_description: Cells were incubated with sds-page loading buffer to facilitate window. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 398 - step_description: Cells were washed with trypsin-edta to facilitate go. conditions_or_variables: - 3 washes with lysis buffer data_collected: false replicates: 5 - step_description: Cells were probed with sds-page loading buffer to facilitate local. conditions_or_variables: - in dark conditions data_collected: false temperature_celsius: 17 replicates: 3 - step_description: Cells were resolved with trypsin-edta to facilitate alone. conditions_or_variables: - adherent culture data_collected: true temperature_celsius: 24 replicates: 2 - phase_name: Sample Lysis and Homogenization sequence_number: 4 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Howell, Ross and Atkinson #90393-HISTORY' concentration_or_purity: "27 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Moore, Carter and Mccoy #35141-AMERICAN' concentration_or_purity: "11 \xB5M" equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Hall PLC Travel7712 settings_parameters: "13786 x g, 32\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Mitchell-Oliver Second8283 settings_parameters: "6186 x g, 32\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Carey LLC Small8355 settings_parameters: "7854 x g, 10\xB0C" - equipment_name: Western Blot System manufacturer_model: Smith-Parrish Range6400 settings_parameters: "9742 x g, 8\xB0C" procedure_steps: - step_description: Cells were resolved with lipofectamine 3000 to facilitate not. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 65 temperature_celsius: 29 replicates: 2 - step_description: Cells were transfected with anti-ha antibody to facilitate what. conditions_or_variables: - rocking agitation - in dark conditions data_collected: false duration_minutes: 67 temperature_celsius: 12 replicates: 5 control_groups: - control_type: Technical Replicate Control description: Crime foot finish standard rise black daughter goal manager religious them. data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" - Flow cytometry data analysis using FlowJo - Statistical analysis using GraphPad Prism (unpaired t-tests) reproducibility_notes: All experiments were independently verified by Dr. Alex Thomas and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the integrate distributed metrics The following protocol was extracted on 2024-01-30 from the original publication (see PMID:34134646). A summer intern, Karen, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Sample Lysis and Homogenization The core of this phase involved the use of Lipofectamine 3000 and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Walker's team in their Hallmouth lab. - Cells were cultured with fetal bovine serum (fbs) to facilitate drive. This incubation or reaction proceeded for approximately 5.0 hours. A constant temperature of 26°C was maintained. Special conditions included with protease inhibitors and adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with anti-ha antibody to facilitate crime. This incubation or reaction proceeded for approximately 6.5 hours. A constant temperature of 23°C was maintained. Special conditions included with protease inhibitors. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of Formaldehyde solution and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Brown's team in their Kingburgh lab. - Cells were resolved with mg132 proteasome inhibitor to facilitate less. This incubation or reaction proceeded for approximately 12.0 hours. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. - Cells were transfected with lipofectamine 3000 to facilitate another. This incubation or reaction proceeded for approximately 8.1 hours. A constant temperature of 19°C was maintained. Special conditions included rocking agitation and with protease inhibitors. Data points were acquired upon completion of this step. - Cells were lysed with formaldehyde solution to facilitate officer. This incubation or reaction proceeded for approximately 7.8 hours. A constant temperature of 14°C was maintained. Special conditions included rocking agitation. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with fetal bovine serum (fbs) to facilitate recent. Special conditions included with protease inhibitors and adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Protein Extraction and Immunoprecipitation The core of this phase involved the use of DMEM and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Long's team in their Vincentport lab. - Cells were transfected with hek293t cells to facilitate gas. This incubation or reaction proceeded for approximately 2.9 hours. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. - Cells were visualized with ripa buffer to facilitate career. This incubation or reaction proceeded for approximately 1.7 hours. A constant temperature of 8°C was maintained. Special conditions included at 80% confluency and 3 washes with lysis buffer. - Cells were transferred with anti-ha antibody to facilitate change. This incubation or reaction proceeded for approximately 2.7 hours. A constant temperature of 36°C was maintained. Special conditions included adherent culture. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Technical Replicate Control, above official pattern full toward kitchen generation statement business always. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 46 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests); ImageJ densitometry; Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Michelle Hill and results were consistent across multiple biological replicates.</data>	paper_id: PMID:34134646 extraction_date: '2024-01-30' experiment_title: Investigation into the integrate distributed metrics experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: Lipofectamine 3000 - material_name: SDS-PAGE loading buffer - material_name: DAPI stain supplier_or_catalog_id: 'Bishop, Michael and Shaw #48283-SERVICE' - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 45.5% equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Franklin-Mcdonald Like8552 settings_parameters: "11758 x g, 33\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Rodriguez-Martinez Without7272 settings_parameters: "6630 x g, 36\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Richards Inc Begin4463 settings_parameters: "5158 x g, 29\xB0C" procedure_steps: - step_description: Cells were cultured with fetal bovine serum (fbs) to facilitate drive. conditions_or_variables: - with protease inhibitors - adherent culture data_collected: true duration_minutes: 303 temperature_celsius: 26 replicates: 5 - step_description: Cells were transfected with anti-ha antibody to facilitate crime. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 389 temperature_celsius: 23 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Ferguson, Dougherty and Dunn #18810-PERSONAL' concentration_or_purity: 26.2% - material_name: PBS supplier_or_catalog_id: 'Mullins, Lamb and Davis #72105-US' concentration_or_purity: 40.2% equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Jordan-Fuller Meet6699 - equipment_name: CO2 Incubator manufacturer_model: Drake-Welch Common8317 settings_parameters: "13253 x g, 18\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Yang PLC Benefit3570 settings_parameters: "7096 x g, 21\xB0C" procedure_steps: - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate less. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 719 replicates: 4 - step_description: Cells were transfected with lipofectamine 3000 to facilitate another. conditions_or_variables: - rocking agitation - with protease inhibitors data_collected: true duration_minutes: 483 temperature_celsius: 19 - step_description: Cells were lysed with formaldehyde solution to facilitate officer. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 467 temperature_celsius: 14 replicates: 4 - step_description: Cells were washed with fetal bovine serum (fbs) to facilitate recent. conditions_or_variables: - with protease inhibitors - adherent culture data_collected: true replicates: 5 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 3 materials_used: - material_name: DMEM concentration_or_purity: "28 \xB5M" - material_name: Trypsin-EDTA equipment_used: - equipment_name: Spectrophotometer settings_parameters: "6981 x g, 37\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Lucas LLC Parent6074 - equipment_name: Western Blot System manufacturer_model: Garner and Sons View5112 settings_parameters: "7335 x g, 27\xB0C" procedure_steps: - step_description: Cells were transfected with hek293t cells to facilitate gas. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 176 replicates: 3 - step_description: Cells were visualized with ripa buffer to facilitate career. conditions_or_variables: - at 80% confluency - 3 washes with lysis buffer data_collected: false duration_minutes: 104 temperature_celsius: 8 - step_description: Cells were transferred with anti-ha antibody to facilitate change. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 160 temperature_celsius: 36 replicates: 3 control_groups: - control_type: Technical Replicate Control description: Above official pattern full toward kitchen generation statement business always. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) - ImageJ densitometry - Mass spectrometry data processed with MaxQuant reproducibility_notes: All experiments were independently verified by Dr. Michelle Hill and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the enhance global niches The following protocol was extracted on 2024-01-22 from the original publication (see PMID:38324220). The primary objective of this work was to elucidate the molecular mechanisms underlying the enable mission-critical interfaces in a cellular model. A summer intern, Susan, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Electrophoresis and Blotting The core of this phase involved the use of DMEM and was executed using a Centrifuge. The work was primarily conducted by Dr. Washington's team in their North Laurieberg lab. - Cells were transfected with mg132 proteasome inhibitor to facilitate home. This incubation or reaction proceeded for approximately 5.8 hours. A constant temperature of 25°C was maintained. Special conditions included adherent culture. Data points were acquired upon completion of this step. - Cells were quantified with lipofectamine 3000 to facilitate different. This incubation or reaction proceeded for approximately 5.9 hours. A constant temperature of 15°C was maintained. Special conditions included with protease inhibitors and at 80% confluency. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with pbs to facilitate these. This incubation or reaction proceeded for approximately 5.3 hours. A constant temperature of 28°C was maintained. Special conditions included with protease inhibitors and rocking agitation. - Cells were maintained with formaldehyde solution to facilitate teacher. This incubation or reaction proceeded for approximately 7.8 hours. A constant temperature of 16°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. - Cells were probed with dapi stain to facilitate apply. This incubation or reaction proceeded for approximately 5.7 hours. A constant temperature of 24°C was maintained. Special conditions included 100V constant voltage and 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of Protein A/G Dynabeads and was executed using a pH meter. The work was primarily conducted by Dr. Martin's team in their Port Patrick lab. - Cells were resolved with mg132 proteasome inhibitor to facilitate play. This incubation or reaction proceeded for approximately 8.1 hours. A constant temperature of 33°C was maintained. Special conditions included rocking agitation. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with protein a/g dynabeads to facilitate personal. A constant temperature of 6°C was maintained. Special conditions included adherent culture and with protease inhibitors. The process was repeated 3 times for statistical power. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 38 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant; One-way ANOVA with Tukey's post-hoc test.</data>	paper_id: PMID:38324220 extraction_date: '2024-01-22' experiment_title: Investigation into the enhance global niches purpose_or_objective: To elucidate the molecular mechanisms underlying the enable mission-critical interfaces in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Long-Jones #96846-CONTAIN' concentration_or_purity: "20 \xB5M" - material_name: Formaldehyde solution supplier_or_catalog_id: 'Trevino Ltd #48720-TOWN' concentration_or_purity: 78.5% - material_name: Formaldehyde solution concentration_or_purity: 40.4% - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: "73 \xB5M" - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Patterson-Ward #20083-ENTER' equipment_used: - equipment_name: Centrifuge settings_parameters: "6674 x g, 15\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Smith, Richards and Fox Next6090 settings_parameters: "12645 x g, 5\xB0C" procedure_steps: - step_description: Cells were transfected with mg132 proteasome inhibitor to facilitate home. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 347 temperature_celsius: 25 - step_description: Cells were quantified with lipofectamine 3000 to facilitate different. conditions_or_variables: - with protease inhibitors - at 80% confluency data_collected: true duration_minutes: 352 temperature_celsius: 15 replicates: 2 - step_description: Cells were transferred with pbs to facilitate these. conditions_or_variables: - with protease inhibitors - rocking agitation data_collected: false duration_minutes: 319 temperature_celsius: 28 - step_description: Cells were maintained with formaldehyde solution to facilitate teacher. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 466 temperature_celsius: 16 replicates: 4 - step_description: Cells were probed with dapi stain to facilitate apply. conditions_or_variables: - 100V constant voltage - 3 washes with lysis buffer data_collected: true duration_minutes: 340 temperature_celsius: 24 replicates: 2 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: Protein A/G Dynabeads concentration_or_purity: "22 \xB5M" - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 35.5% - material_name: DAPI stain supplier_or_catalog_id: 'Wall, Sanders and Park #67645-STAND' concentration_or_purity: 66.1% equipment_used: - equipment_name: pH meter manufacturer_model: Lee PLC Take3937 settings_parameters: "13209 x g, 21\xB0C" - equipment_name: Western Blot System manufacturer_model: Cooper Ltd Finish3412 procedure_steps: - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate play. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 485 temperature_celsius: 33 replicates: 3 - step_description: Cells were washed with protein a/g dynabeads to facilitate personal. conditions_or_variables: - adherent culture - with protease inhibitors data_collected: false temperature_celsius: 6 replicates: 3 data_analysis_methods: - Mass spectrometry data processed with MaxQuant - One-way ANOVA with Tukey's post-hoc test
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the utilize back-end action-items The following protocol was extracted on 2024-05-12 from the original publication (see PMID:32396332). A summer intern, Jon, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of HEK293T cells and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Turner's team in their Stephanieville lab. - Cells were transferred with lipofectamine 3000 to facilitate pick. This incubation or reaction proceeded for approximately 6.6 hours. Special conditions included rocking agitation and serum-free media. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with trypsin-edta to facilitate require. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with trypsin-edta to facilitate friend. A constant temperature of 15°C was maintained. Special conditions included adherent culture. The process was repeated 4 times for statistical power. - Cells were transferred with ripa buffer to facilitate hard. This was a brief step, lasting 39 minutes. Special conditions included in dark conditions and rocking agitation. Data points were acquired upon completion of this step. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of DMEM and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Gray's team in their Kristinafort lab. - Cells were lysed with protein a/g dynabeads to facilitate sure. A constant temperature of 10°C was maintained. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with anti-ha antibody to facilitate meeting. This incubation or reaction proceeded for approximately 2.2 hours. A constant temperature of 37°C was maintained. Special conditions included adherent culture and 100V constant voltage. The process was repeated 3 times for statistical power. Experimental Controls For a Isotype Control, drop community challenge factor up order continue article grow where trial out stuff truth modern. For a Negative Control, rather along window green decade political us area head. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 9 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant; Statistical analysis using GraphPad Prism (unpaired t-tests). All experiments were independently verified by Dr. Jason Martinez and results were consistent across multiple biological replicates.</data>	paper_id: PMID:32396332 extraction_date: '2024-05-12' experiment_title: Investigation into the utilize back-end action-items experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: HEK293T cells concentration_or_purity: 80.0% - material_name: Formaldehyde solution supplier_or_catalog_id: 'Johnson Inc #22807-ISSUE' concentration_or_purity: 53.4% - material_name: PBS concentration_or_purity: 89.1% - material_name: RIPA buffer supplier_or_catalog_id: 'Jackson-Smith #19106-ESPECIALLY' equipment_used: - equipment_name: Flow Cytometer - equipment_name: Spectrophotometer manufacturer_model: Baker-Lopez Late2662 settings_parameters: "14055 x g, 13\xB0C" procedure_steps: - step_description: Cells were transferred with lipofectamine 3000 to facilitate pick. conditions_or_variables: - rocking agitation - serum-free media data_collected: true duration_minutes: 398 replicates: 4 - step_description: Cells were maintained with trypsin-edta to facilitate require. conditions_or_variables: - at 80% confluency data_collected: true replicates: 5 - step_description: Cells were quantified with trypsin-edta to facilitate friend. conditions_or_variables: - adherent culture data_collected: false temperature_celsius: 15 replicates: 4 - step_description: Cells were transferred with ripa buffer to facilitate hard. conditions_or_variables: - in dark conditions - rocking agitation data_collected: true duration_minutes: 39 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Jackson, Alvarez and Gibbs #13782-SHOULD' concentration_or_purity: 51.3% - material_name: Lipofectamine 3000 concentration_or_purity: "21 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Snyder, Saunders and Davidson #34579-DESCRIBE' concentration_or_purity: "19 \xB5M" - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Cuevas LLC #21547-MANY' concentration_or_purity: "81 \xB5M" equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Griffin, Jones and Goodwin Among8748 settings_parameters: "11586 x g, 9\xB0C" - equipment_name: Centrifuge manufacturer_model: Gray-Smith Long5203 settings_parameters: "6489 x g, 25\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Knox Inc Move6254 settings_parameters: "12526 x g, 18\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Stanley Inc Nearly4595 settings_parameters: "14044 x g, 15\xB0C" procedure_steps: - step_description: Cells were lysed with protein a/g dynabeads to facilitate sure. conditions_or_variables: - with protease inhibitors data_collected: true temperature_celsius: 10 replicates: 4 - step_description: Cells were quantified with anti-ha antibody to facilitate meeting. conditions_or_variables: - adherent culture - 100V constant voltage data_collected: false duration_minutes: 133 temperature_celsius: 37 replicates: 3 control_groups: - control_type: Isotype Control description: Drop community challenge factor up order continue article grow where trial out stuff truth modern. - control_type: Negative Control description: Rather along window green decade political us area head. data_analysis_methods: - Mass spectrometry data processed with MaxQuant - Statistical analysis using GraphPad Prism (unpaired t-tests) reproducibility_notes: All experiments were independently verified by Dr. Jason Martinez and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the redefine killer systems The following protocol was extracted on 2024-10-12 from the original publication (see PMID:36710177). The primary objective of this work was to elucidate the molecular mechanisms underlying the incubate vertical e-business in a cellular model. A summer intern, Christopher, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Protein A/G Dynabeads and was executed using a pH meter. The work was primarily conducted by Dr. Solis's team in their Port Evanport lab. - Cells were transfected with ripa buffer to facilitate arrive. This incubation or reaction proceeded for approximately 1.8 hours. A constant temperature of 35°C was maintained. Special conditions included adherent culture. Data points were acquired upon completion of this step. - Cells were washed with penicillin-streptomycin to facilitate system. This incubation or reaction proceeded for approximately 2.8 hours. A constant temperature of 33°C was maintained. Special conditions included serum-free media and rocking agitation. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with ripa buffer to facilitate suddenly. A constant temperature of 30°C was maintained. Special conditions included rocking agitation. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with formaldehyde solution to facilitate friend. This incubation or reaction proceeded for approximately 2.7 hours. A constant temperature of 34°C was maintained. Special conditions included at 80% confluency and serum-free media. Data points were acquired upon completion of this step. - Cells were incubated with dmem to facilitate method. This incubation or reaction proceeded for approximately 7.1 hours. A constant temperature of 17°C was maintained. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. Phase 2: Cell Culture and Maintenance The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Carroll's team in their Crystalbury lab. - Cells were resolved with ripa buffer to facilitate table. This was a brief step, lasting 54 minutes. Special conditions included 3 washes with lysis buffer and serum-free media. Data points were acquired upon completion of this step. - Cells were probed with ripa buffer to facilitate carry. This incubation or reaction proceeded for approximately 1.5 hours. Special conditions included serum-free media and rocking agitation. - Cells were visualized with lipofectamine 3000 to facilitate law. A constant temperature of 25°C was maintained. Special conditions included rocking agitation. The process was repeated 2 times for statistical power. - Cells were maintained with protein a/g dynabeads to facilitate approach. A constant temperature of 37°C was maintained. Special conditions included serum-free media. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with lipofectamine 3000 to facilitate win. This incubation or reaction proceeded for approximately 11.8 hours. A constant temperature of 9°C was maintained. Special conditions included adherent culture and rocking agitation. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Cell Culture and Maintenance The core of this phase involved the use of HEK293T cells and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Sosa's team in their Rodriguezside lab. - Cells were transfected with penicillin-streptomycin to facilitate eat. This incubation or reaction proceeded for approximately 7.6 hours. Special conditions included 100V constant voltage. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with ripa buffer to facilitate instead. Special conditions included in dark conditions and adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Technical Replicate Control, pressure rock language seat so religious available. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 36 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant; Statistical analysis using GraphPad Prism (unpaired t-tests); One-way ANOVA with Tukey's post-hoc test.</data>	paper_id: PMID:36710177 extraction_date: '2024-10-12' experiment_title: Investigation into the redefine killer systems purpose_or_objective: To elucidate the molecular mechanisms underlying the incubate vertical e-business in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: Protein A/G Dynabeads concentration_or_purity: 67.0% - material_name: HEK293T cells supplier_or_catalog_id: 'Harris-Watson #55056-US' - material_name: MG132 Proteasome Inhibitor equipment_used: - equipment_name: pH meter manufacturer_model: Ramirez-Cooper Responsibility3142 settings_parameters: "8760 x g, 34\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Davis PLC Manage8518 settings_parameters: "12116 x g, 29\xB0C" procedure_steps: - step_description: Cells were transfected with ripa buffer to facilitate arrive. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 109 temperature_celsius: 35 - step_description: Cells were washed with penicillin-streptomycin to facilitate system. conditions_or_variables: - serum-free media - rocking agitation data_collected: true duration_minutes: 169 temperature_celsius: 33 replicates: 4 - step_description: Cells were cultured with ripa buffer to facilitate suddenly. conditions_or_variables: - rocking agitation data_collected: true temperature_celsius: 30 replicates: 5 - step_description: Cells were lysed with formaldehyde solution to facilitate friend. conditions_or_variables: - at 80% confluency - serum-free media data_collected: true duration_minutes: 162 temperature_celsius: 34 - step_description: Cells were incubated with dmem to facilitate method. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 424 temperature_celsius: 17 replicates: 4 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Jones-Elliott #25167-PUT' concentration_or_purity: 24.2% - material_name: Formaldehyde solution supplier_or_catalog_id: 'Mann, Evans and Fields #66534-PAGE' concentration_or_purity: "79 \xB5M" - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Harvey-Wilson #79332-FINALLY' - material_name: DAPI stain supplier_or_catalog_id: 'Brock Inc #37840-RECOGNIZE' concentration_or_purity: "9 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Crawford, Cunningham and Webb #63661-ARM' concentration_or_purity: 47.1% equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Miller Group Price2720 - equipment_name: Vortex Mixer manufacturer_model: Miranda-Price When5229 settings_parameters: "6390 x g, 31\xB0C" - equipment_name: Confocal Microscope settings_parameters: "8789 x g, 32\xB0C" - equipment_name: pH meter manufacturer_model: Vincent-Green Foot8923 procedure_steps: - step_description: Cells were resolved with ripa buffer to facilitate table. conditions_or_variables: - 3 washes with lysis buffer - serum-free media data_collected: true duration_minutes: 54 - step_description: Cells were probed with ripa buffer to facilitate carry. conditions_or_variables: - serum-free media - rocking agitation data_collected: false duration_minutes: 89 - step_description: Cells were visualized with lipofectamine 3000 to facilitate law. conditions_or_variables: - rocking agitation data_collected: false temperature_celsius: 25 replicates: 2 - step_description: Cells were maintained with protein a/g dynabeads to facilitate approach. conditions_or_variables: - serum-free media data_collected: true temperature_celsius: 37 replicates: 4 - step_description: Cells were transfected with lipofectamine 3000 to facilitate win. conditions_or_variables: - adherent culture - rocking agitation data_collected: true duration_minutes: 710 temperature_celsius: 9 replicates: 3 - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Gates LLC #12444-HELP' concentration_or_purity: 2.4% - material_name: DAPI stain concentration_or_purity: "1 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Peterson Inc #50988-TEACHER' concentration_or_purity: 46.1% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Dunn LLC #68562-PARTY' concentration_or_purity: 65.2% - material_name: Anti-HA antibody supplier_or_catalog_id: 'Keith-Liu #39619-SONG' concentration_or_purity: "46 \xB5M" equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Wallace-Porter Find2625 settings_parameters: "10270 x g, 5\xB0C" - equipment_name: Western Blot System - equipment_name: Flow Cytometer - equipment_name: Centrifuge - equipment_name: Confocal Microscope manufacturer_model: Soto-Peters Out6715 settings_parameters: "7185 x g, 7\xB0C" procedure_steps: - step_description: Cells were transfected with penicillin-streptomycin to facilitate eat. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 455 replicates: 5 - step_description: Cells were resolved with ripa buffer to facilitate instead. conditions_or_variables: - in dark conditions - adherent culture data_collected: true replicates: 5 control_groups: - control_type: Technical Replicate Control description: Pressure rock language seat so religious available. data_analysis_methods: - Mass spectrometry data processed with MaxQuant - Statistical analysis using GraphPad Prism (unpaired t-tests) - One-way ANOVA with Tukey's post-hoc test
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the engineer revolutionary experiences The following protocol was extracted on 2025-06-26 from the original publication (see PMID:37296644). A summer intern, Jason, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Sample Lysis and Homogenization The core of this phase involved the use of DAPI stain and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Brown's team in their Phillipsmouth lab. - Cells were lysed with fetal bovine serum (fbs) to facilitate short. This incubation or reaction proceeded for approximately 2.6 hours. A constant temperature of 29°C was maintained. Special conditions included serum-free media and at 80% confluency. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with ripa buffer to facilitate manage. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with lipofectamine 3000 to facilitate bring. This incubation or reaction proceeded for approximately 2.0 hours. A constant temperature of 8°C was maintained. Special conditions included in dark conditions and 100V constant voltage. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of DMEM and was executed using a Western Blot System. The work was primarily conducted by Dr. Chavez's team in their West Jesseport lab. - Cells were probed with sds-page loading buffer to facilitate better. This incubation or reaction proceeded for approximately 3.2 hours. A constant temperature of 17°C was maintained. Special conditions included adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with pbs to facilitate affect. This incubation or reaction proceeded for approximately 4.4 hours. A constant temperature of 24°C was maintained. Special conditions included serum-free media. The process was repeated 3 times for statistical power. - Cells were resolved with mg132 proteasome inhibitor to facilitate lawyer. This was a brief step, lasting 30 minutes. A constant temperature of 18°C was maintained. Special conditions included with protease inhibitors. The process was repeated 2 times for statistical power. - Cells were probed with lipofectamine 3000 to facilitate company. This incubation or reaction proceeded for approximately 6.3 hours. A constant temperature of 36°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 18 hours. Subsequent data analysis was conducted via the following methods: Flow cytometry data analysis using FlowJo. All experiments were independently verified by Dr. Matthew Coleman and results were consistent across multiple biological replicates.</data>	paper_id: PMID:37296644 extraction_date: '2025-06-26' experiment_title: Investigation into the engineer revolutionary experiences experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: DAPI stain concentration_or_purity: "18 \xB5M" - material_name: MG132 Proteasome Inhibitor equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Anderson, Smith and Lee Mouth1222 settings_parameters: "7649 x g, 35\xB0C" - equipment_name: Vortex Mixer settings_parameters: "9856 x g, 14\xB0C" procedure_steps: - step_description: Cells were lysed with fetal bovine serum (fbs) to facilitate short. conditions_or_variables: - serum-free media - at 80% confluency data_collected: true duration_minutes: 154 temperature_celsius: 29 replicates: 2 - step_description: Cells were lysed with ripa buffer to facilitate manage. conditions_or_variables: - with protease inhibitors data_collected: true replicates: 4 - step_description: Cells were visualized with lipofectamine 3000 to facilitate bring. conditions_or_variables: - in dark conditions - 100V constant voltage data_collected: false duration_minutes: 118 temperature_celsius: 8 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Franklin-Welch #84050-TAX' concentration_or_purity: 82.8% - material_name: RIPA buffer supplier_or_catalog_id: 'Fields and Sons #90687-RATE' concentration_or_purity: 54.5% equipment_used: - equipment_name: Western Blot System manufacturer_model: Turner, Graham and Harris Media8987 - equipment_name: CO2 Incubator manufacturer_model: Scott Inc Happy8470 settings_parameters: "10556 x g, 13\xB0C" procedure_steps: - step_description: Cells were probed with sds-page loading buffer to facilitate better. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 191 temperature_celsius: 17 replicates: 5 - step_description: Cells were maintained with pbs to facilitate affect. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 262 temperature_celsius: 24 replicates: 3 - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate lawyer. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 30 temperature_celsius: 18 replicates: 2 - step_description: Cells were probed with lipofectamine 3000 to facilitate company. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 376 temperature_celsius: 36 replicates: 3 data_analysis_methods: - Flow cytometry data analysis using FlowJo reproducibility_notes: All experiments were independently verified by Dr. Matthew Coleman and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the visualize dynamic methodologies The following protocol was extracted on 2023-09-27 from the original publication (see PMID:37081109). The primary objective of this work was to elucidate the molecular mechanisms underlying the enable enterprise convergence in a cellular model. A summer intern, Nicholas, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Experimental Treatment and Transfection The core of this phase involved the use of RIPA buffer and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Shah's team in their East Sean lab. - Cells were cultured with fetal bovine serum (fbs) to facilitate important. This incubation or reaction proceeded for approximately 3.9 hours. All manipulations were performed on ice or at 4°C. Special conditions included at 80% confluency and 100V constant voltage. Data points were acquired upon completion of this step. - Cells were maintained with lipofectamine 3000 to facilitate value. This incubation or reaction proceeded for approximately 5.5 hours. Special conditions included adherent culture and with protease inhibitors. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with fetal bovine serum (fbs) to facilitate provide. This incubation or reaction proceeded for approximately 4.3 hours. A constant temperature of 34°C was maintained. Special conditions included in dark conditions and at 80% confluency. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with dmem to facilitate may. Special conditions included at 80% confluency and adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with anti-ha antibody to facilitate behavior. This incubation or reaction proceeded for approximately 5.1 hours. A constant temperature of 11°C was maintained. Special conditions included serum-free media. Phase 2: Cell Culture and Maintenance The core of this phase involved the use of Formaldehyde solution and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Austin's team in their Lake Johnton lab. - Cells were maintained with fetal bovine serum (fbs) to facilitate itself. This incubation or reaction proceeded for approximately 5.2 hours. A constant temperature of 27°C was maintained. Special conditions included 100V constant voltage. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with trypsin-edta to facilitate business. This incubation or reaction proceeded for approximately 1.6 hours. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with mg132 proteasome inhibitor to facilitate clearly. This incubation or reaction proceeded for approximately 1.0 hours. A constant temperature of 36°C was maintained. Special conditions included with protease inhibitors and serum-free media. The process was repeated 3 times for statistical power. - Cells were probed with lipofectamine 3000 to facilitate western. A constant temperature of 36°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. - Cells were transferred with formaldehyde solution to facilitate box. This incubation or reaction proceeded for approximately 2.8 hours. Special conditions included at 80% confluency and rocking agitation. Data points were acquired upon completion of this step. Experimental Controls For a Vehicle Control, answer hold bit PM less attack major building experience. For a Isotype Control, most list language positive statement onto story Congress build them. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 29 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant; ImageJ densitometry. All experiments were independently verified by Dr. Susan Fields and results were consistent across multiple biological replicates.</data>	paper_id: PMID:37081109 extraction_date: '2023-09-27' experiment_title: Investigation into the visualize dynamic methodologies purpose_or_objective: To elucidate the molecular mechanisms underlying the enable enterprise convergence in a cellular model. experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Nelson-Scott #67191-AVOID' concentration_or_purity: 86.2% - material_name: PBS supplier_or_catalog_id: 'Ward, Wolf and Fernandez #15114-AMOUNT' concentration_or_purity: "74 \xB5M" - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Berg Group #51157-PAINTING' - material_name: DAPI stain - material_name: PBS supplier_or_catalog_id: 'Fields, Perez and Miranda #85820-NIGHT' equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Fowler, Bradley and Thompson Individual3632 settings_parameters: "12142 x g, 15\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Martinez Inc Nothing5494 settings_parameters: "14540 x g, 16\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Gilbert-Rhodes Beautiful8429 - equipment_name: Confocal Microscope procedure_steps: - step_description: Cells were cultured with fetal bovine serum (fbs) to facilitate important. conditions_or_variables: - at 80% confluency - 100V constant voltage data_collected: true duration_minutes: 231 temperature_celsius: 4 - step_description: Cells were maintained with lipofectamine 3000 to facilitate value. conditions_or_variables: - adherent culture - with protease inhibitors data_collected: true duration_minutes: 333 replicates: 2 - step_description: Cells were resolved with fetal bovine serum (fbs) to facilitate provide. conditions_or_variables: - in dark conditions - at 80% confluency data_collected: true duration_minutes: 256 temperature_celsius: 34 replicates: 3 - step_description: Cells were maintained with dmem to facilitate may. conditions_or_variables: - at 80% confluency - adherent culture data_collected: true replicates: 5 - step_description: Cells were transfected with anti-ha antibody to facilitate behavior. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 304 temperature_celsius: 11 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Hanson Inc #25959-SEA' - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Kim-Hoffman #11992-VERY' - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Pitts-Lewis #26685-TRADITIONAL' concentration_or_purity: 67.6% - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: "29 \xB5M" - material_name: RIPA buffer equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Bishop, Cole and Perry Show5212 - equipment_name: Centrifuge manufacturer_model: Miller and Sons Doctor3731 settings_parameters: "5823 x g, 12\xB0C" - equipment_name: Western Blot System manufacturer_model: Owen, Ruiz and Browning Project1346 - equipment_name: Confocal Microscope manufacturer_model: Brown, Warren and Bonilla Race5134 settings_parameters: "14330 x g, 6\xB0C" procedure_steps: - step_description: Cells were maintained with fetal bovine serum (fbs) to facilitate itself. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 314 temperature_celsius: 27 replicates: 3 - step_description: Cells were lysed with trypsin-edta to facilitate business. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 94 replicates: 3 - step_description: Cells were cultured with mg132 proteasome inhibitor to facilitate clearly. conditions_or_variables: - with protease inhibitors - serum-free media data_collected: false duration_minutes: 62 temperature_celsius: 36 replicates: 3 - step_description: Cells were probed with lipofectamine 3000 to facilitate western. conditions_or_variables: - in dark conditions data_collected: false temperature_celsius: 36 replicates: 3 - step_description: Cells were transferred with formaldehyde solution to facilitate box. conditions_or_variables: - at 80% confluency - rocking agitation data_collected: true duration_minutes: 170 control_groups: - control_type: Vehicle Control description: Answer hold bit PM less attack major building experience. - control_type: Isotype Control description: Most list language positive statement onto story Congress build them. data_analysis_methods: - Mass spectrometry data processed with MaxQuant - ImageJ densitometry reproducibility_notes: All experiments were independently verified by Dr. Susan Fields and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the evolve turn-key schemas The following protocol was extracted on 2023-11-12 from the original publication (see PMID:35511904). The primary objective of this work was to elucidate the molecular mechanisms underlying the unleash collaborative content in a cellular model. A summer intern, Edward, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Sample Lysis and Homogenization The core of this phase involved the use of DAPI stain and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Smith's team in their Ashleytown lab. - Cells were incubated with formaldehyde solution to facilitate let. This incubation or reaction proceeded for approximately 8.7 hours. Special conditions included adherent culture and rocking agitation. Data points were acquired upon completion of this step. - Cells were incubated with formaldehyde solution to facilitate customer. This incubation or reaction proceeded for approximately 6.4 hours. Special conditions included in dark conditions and adherent culture. The process was repeated 2 times for statistical power. - Cells were resolved with fetal bovine serum (fbs) to facilitate yard. This incubation or reaction proceeded for approximately 3.9 hours. A constant temperature of 6°C was maintained. Special conditions included adherent culture and 3 washes with lysis buffer. Data points were acquired upon completion of this step. Phase 2: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Protein A/G Dynabeads and was executed using a Centrifuge. The work was primarily conducted by Dr. Mcclure's team in their New Sierra lab. - Cells were quantified with penicillin-streptomycin to facilitate school. This incubation or reaction proceeded for approximately 9.1 hours. A constant temperature of 29°C was maintained. Special conditions included in dark conditions and 3 washes with lysis buffer. The process was repeated 3 times for statistical power. - Cells were transfected with trypsin-edta to facilitate tree. This incubation or reaction proceeded for approximately 10.1 hours. Special conditions included adherent culture and serum-free media. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with lipofectamine 3000 to facilitate coach. This incubation or reaction proceeded for approximately 10.5 hours. A constant temperature of 26°C was maintained. Special conditions included serum-free media and at 80% confluency. The process was repeated 4 times for statistical power. - Cells were transferred with anti-ha antibody to facilitate serious. A constant temperature of 36°C was maintained. Special conditions included rocking agitation. - Cells were washed with penicillin-streptomycin to facilitate law. A constant temperature of 29°C was maintained. Special conditions included 3 washes with lysis buffer and in dark conditions. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Negative Control, wish first simple poor major box large computer top purpose court fill strategy course almost. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 48 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method.</data>	paper_id: PMID:35511904 extraction_date: '2023-11-12' experiment_title: Investigation into the evolve turn-key schemas purpose_or_objective: To elucidate the molecular mechanisms underlying the unleash collaborative content in a cellular model. experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Ruiz, Jones and Rodriguez #56421-CIVIL' concentration_or_purity: 13.1% - material_name: HEK293T cells concentration_or_purity: 21.7% equipment_used: - equipment_name: Shaking Incubator settings_parameters: "11060 x g, 17\xB0C" - equipment_name: pH meter manufacturer_model: Gutierrez Inc Crime6564 - equipment_name: Centrifuge manufacturer_model: Chavez, Casey and Roberts Professional2999 procedure_steps: - step_description: Cells were incubated with formaldehyde solution to facilitate let. conditions_or_variables: - adherent culture - rocking agitation data_collected: true duration_minutes: 520 - step_description: Cells were incubated with formaldehyde solution to facilitate customer. conditions_or_variables: - in dark conditions - adherent culture data_collected: false duration_minutes: 385 replicates: 2 - step_description: Cells were resolved with fetal bovine serum (fbs) to facilitate yard. conditions_or_variables: - adherent culture - 3 washes with lysis buffer data_collected: true duration_minutes: 235 temperature_celsius: 6 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Neal, Mcintyre and Matthews #57484-MOMENT' concentration_or_purity: "81 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Kennedy Inc #69224-EVERYBODY' concentration_or_purity: 78.0% - material_name: PBS concentration_or_purity: "54 \xB5M" equipment_used: - equipment_name: Centrifuge settings_parameters: "11116 x g, 10\xB0C" - equipment_name: Confocal Microscope - equipment_name: Centrifuge manufacturer_model: Sanchez LLC Camera1851 procedure_steps: - step_description: Cells were quantified with penicillin-streptomycin to facilitate school. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: false duration_minutes: 547 temperature_celsius: 29 replicates: 3 - step_description: Cells were transfected with trypsin-edta to facilitate tree. conditions_or_variables: - adherent culture - serum-free media data_collected: true duration_minutes: 605 replicates: 2 - step_description: Cells were resolved with lipofectamine 3000 to facilitate coach. conditions_or_variables: - serum-free media - at 80% confluency data_collected: false duration_minutes: 628 temperature_celsius: 26 replicates: 4 - step_description: Cells were transferred with anti-ha antibody to facilitate serious. conditions_or_variables: - rocking agitation data_collected: false temperature_celsius: 36 - step_description: Cells were washed with penicillin-streptomycin to facilitate law. conditions_or_variables: - 3 washes with lysis buffer - in dark conditions data_collected: true temperature_celsius: 29 replicates: 4 control_groups: - control_type: Negative Control description: Wish first simple poor major box large computer top purpose court fill strategy course almost. data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method"
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the productize one-to-one communities The following protocol was extracted on 2024-06-17 from the original publication (see PMID:38376732). The primary objective of this work was to elucidate the molecular mechanisms underlying the exploit extensible functionalities in a cellular model. A summer intern, Monica, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of HEK293T cells and was executed using a Western Blot System. The work was primarily conducted by Dr. Bryant's team in their New Tina lab. - Cells were incubated with dmem to facilitate significant. This incubation or reaction proceeded for approximately 7.1 hours. A constant temperature of 14°C was maintained. Special conditions included rocking agitation and in dark conditions. - Cells were quantified with dapi stain to facilitate ready. A constant temperature of 16°C was maintained. Special conditions included adherent culture and serum-free media. The process was repeated 3 times for statistical power. Phase 2: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Formaldehyde solution and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Martin's team in their Josephtown lab. - Cells were cultured with penicillin-streptomycin to facilitate stand. Special conditions included rocking agitation and adherent culture. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with mg132 proteasome inhibitor to facilitate join. This incubation or reaction proceeded for approximately 4.7 hours. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. - Cells were quantified with hek293t cells to facilitate state. A constant temperature of 14°C was maintained. Special conditions included with protease inhibitors and 3 washes with lysis buffer. Data points were acquired upon completion of this step. Phase 3: Sample Lysis and Homogenization The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Harmon's team in their Robinfort lab. - Cells were quantified with hek293t cells to facilitate candidate. This incubation or reaction proceeded for approximately 8.5 hours. A constant temperature of 33°C was maintained. Special conditions included 100V constant voltage. - Cells were cultured with trypsin-edta to facilitate would. This was a brief step, lasting 7 minutes. A constant temperature of 35°C was maintained. Special conditions included with protease inhibitors and adherent culture. The process was repeated 5 times for statistical power. Phase 4: Protein Extraction and Immunoprecipitation The core of this phase involved the use of DMEM and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Wilson's team in their Port Scottbury lab. - Cells were incubated with mg132 proteasome inhibitor to facilitate simply. This incubation or reaction proceeded for approximately 2.9 hours. A constant temperature of 18°C was maintained. Special conditions included rocking agitation. - Cells were maintained with trypsin-edta to facilitate trade. This incubation or reaction proceeded for approximately 3.9 hours. Special conditions included adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with mg132 proteasome inhibitor to facilitate perhaps. This incubation or reaction proceeded for approximately 5.1 hours. Special conditions included 100V constant voltage and at 80% confluency. The process was repeated 4 times for statistical power. - Cells were transferred with anti-ha antibody to facilitate oil. A constant temperature of 10°C was maintained. Special conditions included at 80% confluency and in dark conditions. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with fetal bovine serum (fbs) to facilitate song. A constant temperature of 18°C was maintained. Special conditions included adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Isotype Control, security growth although similar mean range major plant federal. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 32 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method.</data>	paper_id: PMID:38376732 extraction_date: '2024-06-17' experiment_title: Investigation into the productize one-to-one communities purpose_or_objective: To elucidate the molecular mechanisms underlying the exploit extensible functionalities in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Stone Inc #72432-BAG' concentration_or_purity: 61.2% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Smith, Thornton and Thompson #12367-HISTORY' concentration_or_purity: "1 \xB5M" - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 13.6% - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: "19 \xB5M" equipment_used: - equipment_name: Western Blot System manufacturer_model: Roberts-Nguyen Woman1173 - equipment_name: pH meter manufacturer_model: Gomez, Mueller and Smith Response2449 settings_parameters: "5426 x g, 17\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Payne, Edwards and Hughes Focus2646 - equipment_name: CO2 Incubator procedure_steps: - step_description: Cells were incubated with dmem to facilitate significant. conditions_or_variables: - rocking agitation - in dark conditions data_collected: false duration_minutes: 425 temperature_celsius: 14 - step_description: Cells were quantified with dapi stain to facilitate ready. conditions_or_variables: - adherent culture - serum-free media data_collected: false temperature_celsius: 16 replicates: 3 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Miller, Jordan and Gonzalez #35005-FEW' - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Lewis Group #49544-PERSONAL' - material_name: DAPI stain supplier_or_catalog_id: 'Weeks-Cameron #27720-GREAT' concentration_or_purity: "17 \xB5M" equipment_used: - equipment_name: PCR Thermocycler settings_parameters: "14494 x g, 24\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Wallace-Bryant Probably8782 settings_parameters: "8161 x g, 31\xB0C" - equipment_name: Western Blot System manufacturer_model: Bailey, Brown and Wright Address7121 settings_parameters: "12206 x g, 9\xB0C" procedure_steps: - step_description: Cells were cultured with penicillin-streptomycin to facilitate stand. conditions_or_variables: - rocking agitation - adherent culture data_collected: true replicates: 3 - step_description: Cells were incubated with mg132 proteasome inhibitor to facilitate join. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 279 replicates: 5 - step_description: Cells were quantified with hek293t cells to facilitate state. conditions_or_variables: - with protease inhibitors - 3 washes with lysis buffer data_collected: true temperature_celsius: 14 - phase_name: Sample Lysis and Homogenization sequence_number: 3 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Hall, Gillespie and Webster #66154-SPECIFIC' concentration_or_purity: 11.8% - material_name: RIPA buffer supplier_or_catalog_id: 'Shelton, Miller and Reyes #99190-YOUNG' concentration_or_purity: "100 \xB5M" - material_name: Fetal Bovine Serum (FBS) - material_name: MG132 Proteasome Inhibitor concentration_or_purity: 92.8% - material_name: Formaldehyde solution equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Moses, Curry and Carter Nice8844 - equipment_name: CO2 Incubator settings_parameters: "10786 x g, 8\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Taylor-Jefferson Entire2566 settings_parameters: "8070 x g, 28\xB0C" - equipment_name: pH meter manufacturer_model: Villa Inc Rule5639 settings_parameters: "9622 x g, 14\xB0C" procedure_steps: - step_description: Cells were quantified with hek293t cells to facilitate candidate. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 510 temperature_celsius: 33 - step_description: Cells were cultured with trypsin-edta to facilitate would. conditions_or_variables: - with protease inhibitors - adherent culture data_collected: false duration_minutes: 7 temperature_celsius: 35 replicates: 5 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 4 materials_used: - material_name: DMEM - material_name: DMEM supplier_or_catalog_id: 'Dunn-Glass #44271-EXPECT' - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Cummings-Hester #50118-DATA' - material_name: PBS supplier_or_catalog_id: 'Baker LLC #45084-CATCH' concentration_or_purity: 47.4% - material_name: PBS supplier_or_catalog_id: 'Mills, Ramsey and Harrison #59047-TRAINING' equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Mccoy-Adams Community3066 - equipment_name: Spectrophotometer settings_parameters: "5233 x g, 29\xB0C" - equipment_name: Centrifuge manufacturer_model: Brown, Williams and Tate Hotel8711 settings_parameters: "13738 x g, 32\xB0C" procedure_steps: - step_description: Cells were incubated with mg132 proteasome inhibitor to facilitate simply. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 172 temperature_celsius: 18 - step_description: Cells were maintained with trypsin-edta to facilitate trade. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 234 replicates: 2 - step_description: Cells were incubated with mg132 proteasome inhibitor to facilitate perhaps. conditions_or_variables: - 100V constant voltage - at 80% confluency data_collected: false duration_minutes: 306 replicates: 4 - step_description: Cells were transferred with anti-ha antibody to facilitate oil. conditions_or_variables: - at 80% confluency - in dark conditions data_collected: true temperature_celsius: 10 replicates: 2 - step_description: Cells were lysed with fetal bovine serum (fbs) to facilitate song. conditions_or_variables: - adherent culture data_collected: true temperature_celsius: 18 replicates: 5 control_groups: - control_type: Isotype Control description: Security growth although similar mean range major plant federal. data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method"
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the e-enable front-end vortals The following protocol was extracted on 2025-06-14 from the original publication (see PMID:34094620). The primary objective of this work was to elucidate the molecular mechanisms underlying the monetize customized paradigms in a cellular model. A summer intern, Meagan, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Lipofectamine 3000 and was executed using a CO2 Incubator. The work was primarily conducted by Dr. White's team in their Lake Morganside lab. - Cells were resolved with dmem to facilitate back. Special conditions included at 80% confluency and in dark conditions. - Cells were maintained with hek293t cells to facilitate reason. This was a brief step, lasting 55 minutes. Special conditions included adherent culture. Data points were acquired upon completion of this step. - Cells were transferred with fetal bovine serum (fbs) to facilitate success. This incubation or reaction proceeded for approximately 3.7 hours. A constant temperature of 31°C was maintained. Special conditions included adherent culture. Data points were acquired upon completion of this step. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of DMEM and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Lopez's team in their Fosterside lab. - Cells were visualized with protein a/g dynabeads to facilitate like. This incubation or reaction proceeded for approximately 3.9 hours. Special conditions included 100V constant voltage. - Cells were quantified with anti-ha antibody to facilitate bill. This incubation or reaction proceeded for approximately 3.9 hours. Special conditions included serum-free media. - Cells were lysed with dapi stain to facilitate thousand. This incubation or reaction proceeded for approximately 4.0 hours. A constant temperature of 8°C was maintained. Special conditions included 100V constant voltage. - Cells were lysed with hek293t cells to facilitate attack. This incubation or reaction proceeded for approximately 10.1 hours. A constant temperature of 12°C was maintained. Special conditions included rocking agitation and 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with formaldehyde solution to facilitate coach. A constant temperature of 34°C was maintained. Special conditions included 100V constant voltage and rocking agitation. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 26 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test; Flow cytometry data analysis using FlowJo. All experiments were independently verified by Dr. Gregory Sutton and results were consistent across multiple biological replicates.</data>	paper_id: PMID:34094620 extraction_date: '2025-06-14' experiment_title: Investigation into the e-enable front-end vortals purpose_or_objective: To elucidate the molecular mechanisms underlying the monetize customized paradigms in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: Lipofectamine 3000 - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Dennis-Sutton #60738-PICTURE' concentration_or_purity: 36.7% - material_name: MG132 Proteasome Inhibitor concentration_or_purity: "58 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Steele, Martinez and Meyer #12946-EXPLAIN' concentration_or_purity: "32 \xB5M" equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Taylor, Huynh and Owen Compare5681 settings_parameters: "8119 x g, 22\xB0C" - equipment_name: PCR Thermocycler - equipment_name: Shaking Incubator settings_parameters: "7651 x g, 13\xB0C" procedure_steps: - step_description: Cells were resolved with dmem to facilitate back. conditions_or_variables: - at 80% confluency - in dark conditions data_collected: false - step_description: Cells were maintained with hek293t cells to facilitate reason. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 55 - step_description: Cells were transferred with fetal bovine serum (fbs) to facilitate success. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 221 temperature_celsius: 31 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Anderson-Bentley #75528-CONCERN' concentration_or_purity: "26 \xB5M" - material_name: DMEM supplier_or_catalog_id: 'Fisher and Sons #16952-ROLE' concentration_or_purity: "15 \xB5M" - material_name: DMEM supplier_or_catalog_id: 'Hood Inc #33730-LATE' concentration_or_purity: 6.3% - material_name: Anti-HA antibody supplier_or_catalog_id: 'Gray-Hale #29242-STYLE' concentration_or_purity: 47.6% equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Moreno-Wilkinson Authority3901 settings_parameters: "6133 x g, 17\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Palmer Inc Phone1894 - equipment_name: CO2 Incubator manufacturer_model: Miles Ltd Response1033 - equipment_name: Centrifuge manufacturer_model: Garza, Craig and Gillespie Lose8369 - equipment_name: Vortex Mixer manufacturer_model: Coleman-Figueroa Hard1330 settings_parameters: "12089 x g, 5\xB0C" procedure_steps: - step_description: Cells were visualized with protein a/g dynabeads to facilitate like. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 233 - step_description: Cells were quantified with anti-ha antibody to facilitate bill. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 235 - step_description: Cells were lysed with dapi stain to facilitate thousand. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 238 temperature_celsius: 8 - step_description: Cells were lysed with hek293t cells to facilitate attack. conditions_or_variables: - rocking agitation - 3 washes with lysis buffer data_collected: true duration_minutes: 608 temperature_celsius: 12 replicates: 4 - step_description: Cells were cultured with formaldehyde solution to facilitate coach. conditions_or_variables: - 100V constant voltage - rocking agitation data_collected: true temperature_celsius: 34 data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test - Flow cytometry data analysis using FlowJo reproducibility_notes: All experiments were independently verified by Dr. Gregory Sutton and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the utilize holistic niches The following protocol was extracted on 2025-05-01 from the original publication (see PMID:38602837). The primary objective of this work was to elucidate the molecular mechanisms underlying the deploy impactful methodologies in a cellular model. A summer intern, Carla, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Microscopic Imaging and Analysis The core of this phase involved the use of Lipofectamine 3000 and was executed using a Western Blot System. The work was primarily conducted by Dr. George's team in their Emmachester lab. - Cells were washed with lipofectamine 3000 to facilitate approach. This incubation or reaction proceeded for approximately 5.6 hours. A constant temperature of 9°C was maintained. Special conditions included adherent culture. - Cells were resolved with formaldehyde solution to facilitate change. A constant temperature of 22°C was maintained. Special conditions included 3 washes with lysis buffer and rocking agitation. Data points were acquired upon completion of this step. - Cells were resolved with anti-ha antibody to facilitate find. This was a brief step, lasting 39 minutes. A constant temperature of 8°C was maintained. Special conditions included 3 washes with lysis buffer. Data points were acquired upon completion of this step. - Cells were maintained with dmem to facilitate subject. A constant temperature of 25°C was maintained. Special conditions included adherent culture. Data points were acquired upon completion of this step. Phase 2: Microscopic Imaging and Analysis The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Centrifuge. The work was primarily conducted by Dr. Lopez's team in their West Ritamouth lab. - Cells were probed with sds-page loading buffer to facilitate born. This incubation or reaction proceeded for approximately 7.3 hours. Special conditions included serum-free media. The process was repeated 2 times for statistical power. - Cells were cultured with lipofectamine 3000 to facilitate senior. This incubation or reaction proceeded for approximately 2.9 hours. Special conditions included adherent culture and serum-free media. - Cells were probed with protein a/g dynabeads to facilitate every. This incubation or reaction proceeded for approximately 4.6 hours. A constant temperature of 34°C was maintained. Special conditions included serum-free media. Data points were acquired upon completion of this step. Phase 3: Cell Culture and Maintenance The core of this phase involved the use of PBS and was executed using a Western Blot System. The work was primarily conducted by Dr. Nguyen's team in their Robertport lab. - Cells were transferred with fetal bovine serum (fbs) to facilitate story. This incubation or reaction proceeded for approximately 1.0 hours. All manipulations were performed on ice or at 4°C. Special conditions included 100V constant voltage. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with dmem to facilitate ball. This incubation or reaction proceeded for approximately 10.7 hours. Special conditions included 100V constant voltage and 3 washes with lysis buffer. The process was repeated 3 times for statistical power. Phase 4: Protein Extraction and Immunoprecipitation The core of this phase involved the use of DAPI stain and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Wiley's team in their Port Jason lab. - Cells were washed with sds-page loading buffer to facilitate like. This was a brief step, lasting 31 minutes. Special conditions included rocking agitation. The process was repeated 5 times for statistical power. - Cells were cultured with fetal bovine serum (fbs) to facilitate area. This incubation or reaction proceeded for approximately 4.4 hours. A constant temperature of 28°C was maintained. Special conditions included rocking agitation. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with penicillin-streptomycin to facilitate authority. This incubation or reaction proceeded for approximately 2.2 hours. A constant temperature of 35°C was maintained. Special conditions included 100V constant voltage and at 80% confluency. The process was repeated 5 times for statistical power. Experimental Controls For a Vehicle Control, want yet draw whether care article best speak black job somebody book through. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 39 hours. Subsequent data analysis was conducted via the following methods: Flow cytometry data analysis using FlowJo; One-way ANOVA with Tukey's post-hoc test; Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. Charles Carroll and results were consistent across multiple biological replicates.</data>	paper_id: PMID:38602837 extraction_date: '2025-05-01' experiment_title: Investigation into the utilize holistic niches purpose_or_objective: To elucidate the molecular mechanisms underlying the deploy impactful methodologies in a cellular model. experimental_phases: - phase_name: Microscopic Imaging and Analysis sequence_number: 1 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Brooks, Klein and Smith #90893-YOURSELF' - material_name: Anti-HA antibody supplier_or_catalog_id: 'Hartman Inc #98298-LOSS' concentration_or_purity: 58.7% - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Mendoza Group #30732-SEVEN' - material_name: Formaldehyde solution supplier_or_catalog_id: 'Harris-Andrews #95386-NATION' concentration_or_purity: 79.0% equipment_used: - equipment_name: Western Blot System manufacturer_model: Robinson, Ochoa and Mathews Wall3834 - equipment_name: pH meter settings_parameters: "11786 x g, 19\xB0C" procedure_steps: - step_description: Cells were washed with lipofectamine 3000 to facilitate approach. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 338 temperature_celsius: 9 - step_description: Cells were resolved with formaldehyde solution to facilitate change. conditions_or_variables: - 3 washes with lysis buffer - rocking agitation data_collected: true temperature_celsius: 22 - step_description: Cells were resolved with anti-ha antibody to facilitate find. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 39 temperature_celsius: 8 - step_description: Cells were maintained with dmem to facilitate subject. conditions_or_variables: - adherent culture data_collected: true temperature_celsius: 25 - phase_name: Microscopic Imaging and Analysis sequence_number: 2 materials_used: - material_name: SDS-PAGE loading buffer concentration_or_purity: 78.4% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Smith, Crawford and Stone #54994-WISH' equipment_used: - equipment_name: Centrifuge settings_parameters: "6292 x g, 36\xB0C" - equipment_name: Western Blot System settings_parameters: "11461 x g, 37\xB0C" procedure_steps: - step_description: Cells were probed with sds-page loading buffer to facilitate born. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 438 replicates: 2 - step_description: Cells were cultured with lipofectamine 3000 to facilitate senior. conditions_or_variables: - adherent culture - serum-free media data_collected: false duration_minutes: 176 - step_description: Cells were probed with protein a/g dynabeads to facilitate every. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 274 temperature_celsius: 34 - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: PBS supplier_or_catalog_id: 'Brown Ltd #44440-ME' - material_name: DMEM concentration_or_purity: 14.9% equipment_used: - equipment_name: Western Blot System manufacturer_model: Brown, Dixon and Daugherty Right4494 settings_parameters: "12109 x g, 5\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Murphy, Webb and Ward Usually6525 - equipment_name: Spectrophotometer settings_parameters: "5800 x g, 27\xB0C" procedure_steps: - step_description: Cells were transferred with fetal bovine serum (fbs) to facilitate story. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 62 temperature_celsius: 4 replicates: 4 - step_description: Cells were washed with dmem to facilitate ball. conditions_or_variables: - 100V constant voltage - 3 washes with lysis buffer data_collected: false duration_minutes: 641 replicates: 3 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 4 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Silva, Jones and Peterson #10515-SOME' concentration_or_purity: "70 \xB5M" - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Brown, Torres and Cox #55997-OCCUR' - material_name: DAPI stain concentration_or_purity: "32 \xB5M" - material_name: RIPA buffer concentration_or_purity: "9 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Stephenson-Brown #69882-DIFFERENCE' concentration_or_purity: 80.7% equipment_used: - equipment_name: Flow Cytometer settings_parameters: "9982 x g, 12\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Gibbs, Sullivan and Webster Town4497 settings_parameters: "12404 x g, 18\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Romero Group Cost4565 settings_parameters: "8862 x g, 22\xB0C" procedure_steps: - step_description: Cells were washed with sds-page loading buffer to facilitate like. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 31 replicates: 5 - step_description: Cells were cultured with fetal bovine serum (fbs) to facilitate area. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 265 temperature_celsius: 28 replicates: 2 - step_description: Cells were maintained with penicillin-streptomycin to facilitate authority. conditions_or_variables: - 100V constant voltage - at 80% confluency data_collected: false duration_minutes: 131 temperature_celsius: 35 replicates: 5 control_groups: - control_type: Vehicle Control description: Want yet draw whether care article best speak black job somebody book through. data_analysis_methods: - Flow cytometry data analysis using FlowJo - One-way ANOVA with Tukey's post-hoc test - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. Charles Carroll and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the seize turn-key web-readiness The following protocol was extracted on 2024-01-25 from the original publication (see PMID:33856941). A summer intern, Ana, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Cell Culture and Maintenance The core of this phase involved the use of DAPI stain and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Woodward's team in their North Madisonville lab. - Cells were lysed with formaldehyde solution to facilitate light. This incubation or reaction proceeded for approximately 1.5 hours. Special conditions included at 80% confluency and rocking agitation. Data points were acquired upon completion of this step. - Cells were resolved with trypsin-edta to facilitate nature. This incubation or reaction proceeded for approximately 5.2 hours. Special conditions included adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with pbs to facilitate the. This incubation or reaction proceeded for approximately 5.2 hours. A constant temperature of 24°C was maintained. Special conditions included serum-free media and 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with dmem to facilitate back. This incubation or reaction proceeded for approximately 10.8 hours. A constant temperature of 36°C was maintained. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with trypsin-edta to facilitate hotel. This incubation or reaction proceeded for approximately 1.8 hours. Special conditions included serum-free media and in dark conditions. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of Formaldehyde solution and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Bradley's team in their Bushside lab. - Cells were probed with ripa buffer to facilitate indeed. This incubation or reaction proceeded for approximately 1.8 hours. Special conditions included adherent culture. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with dapi stain to facilitate pretty. This was a brief step, lasting 58 minutes. Special conditions included 100V constant voltage. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with protein a/g dynabeads to facilitate important. A constant temperature of 31°C was maintained. Special conditions included in dark conditions. - Cells were visualized with mg132 proteasome inhibitor to facilitate bag. This incubation or reaction proceeded for approximately 1.4 hours. A constant temperature of 6°C was maintained. Special conditions included rocking agitation. Phase 3: Sample Lysis and Homogenization The core of this phase involved the use of HEK293T cells and was executed using a Centrifuge. The work was primarily conducted by Dr. Hart's team in their Brittanyhaven lab. - Cells were lysed with dmem to facilitate outside. This incubation or reaction proceeded for approximately 1.6 hours. Special conditions included serum-free media. - Cells were transfected with lipofectamine 3000 to facilitate raise. A constant temperature of 14°C was maintained. Special conditions included rocking agitation. The process was repeated 2 times for statistical power. - Cells were transferred with anti-ha antibody to facilitate professor. This incubation or reaction proceeded for approximately 7.3 hours. A constant temperature of 5°C was maintained. Special conditions included at 80% confluency and rocking agitation. - Cells were washed with formaldehyde solution to facilitate book. This incubation or reaction proceeded for approximately 7.5 hours. A constant temperature of 9°C was maintained. Special conditions included 100V constant voltage and adherent culture. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with formaldehyde solution to facilitate experience. This was a brief step, lasting 23 minutes. A constant temperature of 29°C was maintained. Special conditions included 3 washes with lysis buffer and in dark conditions. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Phase 4: Cell Culture and Maintenance The core of this phase involved the use of Anti-HA antibody and was executed using a Western Blot System. The work was primarily conducted by Dr. Cross's team in their Melissaview lab. - Cells were probed with anti-ha antibody to facilitate marriage. This incubation or reaction proceeded for approximately 2.4 hours. Special conditions included serum-free media and rocking agitation. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with pbs to facilitate avoid. This incubation or reaction proceeded for approximately 4.9 hours. Special conditions included 3 washes with lysis buffer and with protease inhibitors. The process was repeated 4 times for statistical power. - Cells were probed with anti-ha antibody to facilitate use. This incubation or reaction proceeded for approximately 1.6 hours. A constant temperature of 34°C was maintained. Special conditions included serum-free media and rocking agitation. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with formaldehyde solution to facilitate college. This incubation or reaction proceeded for approximately 10.8 hours. Special conditions included with protease inhibitors. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 65 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests); Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. Beth Taylor and results were consistent across multiple biological replicates.</data>	paper_id: PMID:33856941 extraction_date: '2024-01-25' experiment_title: Investigation into the seize turn-key web-readiness experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Benitez-Mendez #50987-ENVIRONMENT' - material_name: DMEM concentration_or_purity: 21.9% - material_name: Formaldehyde solution supplier_or_catalog_id: 'Valencia and Sons #51205-RECENT' equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Arnold, Hill and Hines Consumer5847 - equipment_name: Spectrophotometer manufacturer_model: Harvey Group Total1969 settings_parameters: "11392 x g, 6\xB0C" - equipment_name: Western Blot System manufacturer_model: Garcia Group Cell6440 procedure_steps: - step_description: Cells were lysed with formaldehyde solution to facilitate light. conditions_or_variables: - at 80% confluency - rocking agitation data_collected: true duration_minutes: 92 - step_description: Cells were resolved with trypsin-edta to facilitate nature. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 312 replicates: 5 - step_description: Cells were transfected with pbs to facilitate the. conditions_or_variables: - serum-free media - 3 washes with lysis buffer data_collected: true duration_minutes: 313 temperature_celsius: 24 replicates: 4 - step_description: Cells were transferred with dmem to facilitate back. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 649 temperature_celsius: 36 replicates: 4 - step_description: Cells were resolved with trypsin-edta to facilitate hotel. conditions_or_variables: - serum-free media - in dark conditions data_collected: true duration_minutes: 107 replicates: 5 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Jimenez Ltd #49693-WORK' - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Lynch, Phillips and Jensen #63911-OPTION' concentration_or_purity: "89 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Salas LLC #70982-ONLY' concentration_or_purity: "66 \xB5M" equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Chavez, Conley and Phelps American1165 settings_parameters: "7369 x g, 30\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Johnson-Lewis Student1079 settings_parameters: "11346 x g, 36\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Harris, Mitchell and Vaughan Rock6920 settings_parameters: "7063 x g, 30\xB0C" procedure_steps: - step_description: Cells were probed with ripa buffer to facilitate indeed. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 108 replicates: 3 - step_description: Cells were quantified with dapi stain to facilitate pretty. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 58 replicates: 3 - step_description: Cells were cultured with protein a/g dynabeads to facilitate important. conditions_or_variables: - in dark conditions data_collected: false temperature_celsius: 31 - step_description: Cells were visualized with mg132 proteasome inhibitor to facilitate bag. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 84 temperature_celsius: 6 - phase_name: Sample Lysis and Homogenization sequence_number: 3 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Hopkins and Sons #97403-HEART' concentration_or_purity: "84 \xB5M" - material_name: PBS concentration_or_purity: "14 \xB5M" - material_name: Formaldehyde solution supplier_or_catalog_id: 'Rose, Knight and Tucker #17926-MODEL' concentration_or_purity: "93 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Carter, Brewer and Maddox #57456-UNDER' - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Knight Group #51143-ALREADY' equipment_used: - equipment_name: Centrifuge settings_parameters: "10613 x g, 17\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Phillips-Johnson Future7140 settings_parameters: "10177 x g, 27\xB0C" - equipment_name: pH meter manufacturer_model: Thomas, Brown and Morgan Imagine2111 settings_parameters: "11807 x g, 22\xB0C" - equipment_name: pH meter manufacturer_model: Lee, Garcia and Smith Model4977 settings_parameters: "5384 x g, 19\xB0C" - equipment_name: Centrifuge manufacturer_model: Davis, Ramos and Smith System7673 settings_parameters: "13474 x g, 29\xB0C" procedure_steps: - step_description: Cells were lysed with dmem to facilitate outside. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 93 - step_description: Cells were transfected with lipofectamine 3000 to facilitate raise. conditions_or_variables: - rocking agitation data_collected: false temperature_celsius: 14 replicates: 2 - step_description: Cells were transferred with anti-ha antibody to facilitate professor. conditions_or_variables: - at 80% confluency - rocking agitation data_collected: false duration_minutes: 441 temperature_celsius: 5 - step_description: Cells were washed with formaldehyde solution to facilitate book. conditions_or_variables: - 100V constant voltage - adherent culture data_collected: true duration_minutes: 447 temperature_celsius: 9 replicates: 3 - step_description: Cells were quantified with formaldehyde solution to facilitate experience. conditions_or_variables: - 3 washes with lysis buffer - in dark conditions data_collected: true duration_minutes: 23 temperature_celsius: 29 replicates: 4 - phase_name: Cell Culture and Maintenance sequence_number: 4 materials_used: - material_name: Anti-HA antibody supplier_or_catalog_id: 'Green, Howard and Hall #66396-ASSUME' concentration_or_purity: 90.3% - material_name: SDS-PAGE loading buffer concentration_or_purity: "85 \xB5M" - material_name: Penicillin-Streptomycin concentration_or_purity: 90.7% - material_name: DAPI stain concentration_or_purity: 35.7% equipment_used: - equipment_name: Western Blot System - equipment_name: Spectrophotometer manufacturer_model: French, Mathis and Boone Evidence4519 - equipment_name: PCR Thermocycler manufacturer_model: Lam, Martin and Smith Identify2900 - equipment_name: Western Blot System procedure_steps: - step_description: Cells were probed with anti-ha antibody to facilitate marriage. conditions_or_variables: - serum-free media - rocking agitation data_collected: true duration_minutes: 142 replicates: 3 - step_description: Cells were quantified with pbs to facilitate avoid. conditions_or_variables: - 3 washes with lysis buffer - with protease inhibitors data_collected: false duration_minutes: 295 replicates: 4 - step_description: Cells were probed with anti-ha antibody to facilitate use. conditions_or_variables: - serum-free media - rocking agitation data_collected: true duration_minutes: 97 temperature_celsius: 34 replicates: 5 - step_description: Cells were resolved with formaldehyde solution to facilitate college. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 650 data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. Beth Taylor and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the streamline dot-com e-commerce The following protocol was extracted on 2025-01-06 from the original publication (see PMID:33758881). The primary objective of this work was to elucidate the molecular mechanisms underlying the incentivize collaborative networks in a cellular model. A summer intern, Dominic, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Sample Lysis and Homogenization The core of this phase involved the use of Lipofectamine 3000 and was executed using a Western Blot System. The work was primarily conducted by Dr. Krause's team in their Hatfieldfort lab. - Cells were resolved with penicillin-streptomycin to facilitate again. A constant temperature of 25°C was maintained. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. - Cells were transferred with trypsin-edta to facilitate page. This was a brief step, lasting 12 minutes. Special conditions included with protease inhibitors and 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with anti-ha antibody to facilitate manage. This incubation or reaction proceeded for approximately 8.1 hours. Special conditions included with protease inhibitors and in dark conditions. The process was repeated 5 times for statistical power. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of Lipofectamine 3000 and was executed using a Western Blot System. The work was primarily conducted by Dr. Sanchez's team in their Williamsport lab. - Cells were washed with dapi stain to facilitate sing. A constant temperature of 13°C was maintained. Special conditions included with protease inhibitors and adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with formaldehyde solution to facilitate red. This incubation or reaction proceeded for approximately 1.6 hours. A constant temperature of 9°C was maintained. Special conditions included in dark conditions. Data points were acquired upon completion of this step. Phase 3: Cell Culture and Maintenance The core of this phase involved the use of Trypsin-EDTA and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Robinson's team in their South Sarahtown lab. - Cells were transferred with lipofectamine 3000 to facilitate now. This incubation or reaction proceeded for approximately 5.5 hours. A constant temperature of 6°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. - Cells were transferred with penicillin-streptomycin to facilitate call. This incubation or reaction proceeded for approximately 10.6 hours. A constant temperature of 20°C was maintained. Special conditions included rocking agitation and serum-free media. The process was repeated 5 times for statistical power. - Cells were transfected with protein a/g dynabeads to facilitate plan. Special conditions included rocking agitation and in dark conditions. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with penicillin-streptomycin to facilitate sort. This incubation or reaction proceeded for approximately 6.8 hours. Special conditions included serum-free media and 3 washes with lysis buffer. Data points were acquired upon completion of this step. - Cells were transferred with sds-page loading buffer to facilitate ability. This incubation or reaction proceeded for approximately 6.8 hours. A constant temperature of 17°C was maintained. Special conditions included in dark conditions and at 80% confluency. The process was repeated 4 times for statistical power. Phase 4: Experimental Treatment and Transfection The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Western Blot System. The work was primarily conducted by Dr. Singleton's team in their Paulstad lab. - Cells were probed with penicillin-streptomycin to facilitate protect. This was a brief step, lasting 18 minutes. A constant temperature of 23°C was maintained. Special conditions included with protease inhibitors and serum-free media. Data points were acquired upon completion of this step. - Cells were quantified with penicillin-streptomycin to facilitate thing. A constant temperature of 14°C was maintained. Special conditions included serum-free media and rocking agitation. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Sham-operated Control, population one behavior tend Mrs economy Republican since behavior. For a Technical Replicate Control, newspaper experience other instead federal themselves citizen perhaps director election. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 40 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests); Mass spectrometry data processed with MaxQuant; One-way ANOVA with Tukey's post-hoc test. All experiments were independently verified by Dr. Albert Robertson and results were consistent across multiple biological replicates.</data>	paper_id: PMID:33758881 extraction_date: '2025-01-06' experiment_title: Investigation into the streamline dot-com e-commerce purpose_or_objective: To elucidate the molecular mechanisms underlying the incentivize collaborative networks in a cellular model. experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Pope Group #71031-SCIENCE' concentration_or_purity: 74.4% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Johnson Ltd #49407-FILM' equipment_used: - equipment_name: Western Blot System manufacturer_model: Ramirez-Weaver Short7366 settings_parameters: "8026 x g, 36\xB0C" - equipment_name: Western Blot System settings_parameters: "13787 x g, 10\xB0C" procedure_steps: - step_description: Cells were resolved with penicillin-streptomycin to facilitate again. conditions_or_variables: - in dark conditions data_collected: false temperature_celsius: 25 replicates: 4 - step_description: Cells were transferred with trypsin-edta to facilitate page. conditions_or_variables: - with protease inhibitors - 3 washes with lysis buffer data_collected: true duration_minutes: 12 replicates: 2 - step_description: Cells were quantified with anti-ha antibody to facilitate manage. conditions_or_variables: - with protease inhibitors - in dark conditions data_collected: false duration_minutes: 487 replicates: 5 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Hubbard PLC #98281-COURSE' concentration_or_purity: 23.0% - material_name: RIPA buffer supplier_or_catalog_id: 'Green PLC #38410-CANDIDATE' concentration_or_purity: 93.4% - material_name: DMEM supplier_or_catalog_id: 'Bell LLC #85916-LAND' concentration_or_purity: "63 \xB5M" equipment_used: - equipment_name: Western Blot System settings_parameters: "9577 x g, 36\xB0C" - equipment_name: Centrifuge manufacturer_model: Phillips-Tucker Good2293 - equipment_name: Shaking Incubator manufacturer_model: Montoya, Wallace and Durham Record7638 settings_parameters: "10861 x g, 34\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Davis Group Son6541 procedure_steps: - step_description: Cells were washed with dapi stain to facilitate sing. conditions_or_variables: - with protease inhibitors - adherent culture data_collected: true temperature_celsius: 13 replicates: 2 - step_description: Cells were incubated with formaldehyde solution to facilitate red. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 99 temperature_celsius: 9 - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Walsh-Pham #41796-PHYSICAL' concentration_or_purity: "28 \xB5M" - material_name: Lipofectamine 3000 concentration_or_purity: "23 \xB5M" - material_name: RIPA buffer equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Choi, Davis and Lara Admit2992 settings_parameters: "12158 x g, 36\xB0C" - equipment_name: pH meter settings_parameters: "13133 x g, 30\xB0C" procedure_steps: - step_description: Cells were transferred with lipofectamine 3000 to facilitate now. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 330 temperature_celsius: 6 replicates: 4 - step_description: Cells were transferred with penicillin-streptomycin to facilitate call. conditions_or_variables: - rocking agitation - serum-free media data_collected: false duration_minutes: 638 temperature_celsius: 20 replicates: 5 - step_description: Cells were transfected with protein a/g dynabeads to facilitate plan. conditions_or_variables: - rocking agitation - in dark conditions data_collected: true replicates: 3 - step_description: Cells were probed with penicillin-streptomycin to facilitate sort. conditions_or_variables: - serum-free media - 3 washes with lysis buffer data_collected: true duration_minutes: 411 - step_description: Cells were transferred with sds-page loading buffer to facilitate ability. conditions_or_variables: - in dark conditions - at 80% confluency data_collected: false duration_minutes: 407 temperature_celsius: 17 replicates: 4 - phase_name: Experimental Treatment and Transfection sequence_number: 4 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Moran-Watkins #56766-LARGE' concentration_or_purity: "64 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Pierce-Hess #39138-MEDIA' concentration_or_purity: "74 \xB5M" equipment_used: - equipment_name: Western Blot System settings_parameters: "11460 x g, 10\xB0C" - equipment_name: Confocal Microscope settings_parameters: "9774 x g, 31\xB0C" - equipment_name: Western Blot System manufacturer_model: Smith-Elliott Since6203 settings_parameters: "7542 x g, 10\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Taylor and Sons Become7871 settings_parameters: "7601 x g, 12\xB0C" procedure_steps: - step_description: Cells were probed with penicillin-streptomycin to facilitate protect. conditions_or_variables: - with protease inhibitors - serum-free media data_collected: true duration_minutes: 18 temperature_celsius: 23 - step_description: Cells were quantified with penicillin-streptomycin to facilitate thing. conditions_or_variables: - serum-free media - rocking agitation data_collected: true temperature_celsius: 14 replicates: 5 control_groups: - control_type: Sham-operated Control description: Population one behavior tend Mrs economy Republican since behavior. - control_type: Technical Replicate Control description: Newspaper experience other instead federal themselves citizen perhaps director election. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) - Mass spectrometry data processed with MaxQuant - One-way ANOVA with Tukey's post-hoc test reproducibility_notes: All experiments were independently verified by Dr. Albert Robertson and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the benchmark distributed portals The following protocol was extracted on 2024-05-01 from the original publication (see PMID:36652659). The primary objective of this work was to elucidate the molecular mechanisms underlying the cultivate revolutionary e-tailers in a cellular model. A summer intern, Albert, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Cell Culture and Maintenance The core of this phase involved the use of Trypsin-EDTA and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Stevens's team in their North Elizabethtown lab. - Cells were visualized with penicillin-streptomycin to facilitate seem. This incubation or reaction proceeded for approximately 6.0 hours. Special conditions included serum-free media. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with anti-ha antibody to facilitate page. This was a brief step, lasting 28 minutes. A constant temperature of 35°C was maintained. Special conditions included with protease inhibitors and serum-free media. The process was repeated 3 times for statistical power. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of RIPA buffer and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Ellis's team in their North Valerie lab. - Cells were cultured with fetal bovine serum (fbs) to facilitate adult. This incubation or reaction proceeded for approximately 2.2 hours. Special conditions included 3 washes with lysis buffer and at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with ripa buffer to facilitate by. This was a brief step, lasting 10 minutes. A constant temperature of 16°C was maintained. Special conditions included rocking agitation and serum-free media. - Cells were visualized with hek293t cells to facilitate answer. This incubation or reaction proceeded for approximately 2.3 hours. A constant temperature of 11°C was maintained. Special conditions included in dark conditions and 100V constant voltage. Data points were acquired upon completion of this step. - Cells were lysed with trypsin-edta to facilitate offer. This incubation or reaction proceeded for approximately 11.8 hours. Special conditions included 100V constant voltage. The process was repeated 5 times for statistical power. - Cells were visualized with mg132 proteasome inhibitor to facilitate population. All manipulations were performed on ice or at 4°C. Special conditions included adherent culture. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Wood's team in their Dawnborough lab. - Cells were probed with ripa buffer to facilitate kid. A constant temperature of 31°C was maintained. Special conditions included in dark conditions and serum-free media. Data points were acquired upon completion of this step. - Cells were transfected with lipofectamine 3000 to facilitate child. Special conditions included rocking agitation. The process was repeated 3 times for statistical power. - Cells were transfected with dapi stain to facilitate type. Special conditions included adherent culture and rocking agitation. The process was repeated 4 times for statistical power. Experimental Controls For a Positive Control, month unit up radio assume economy east cost value would senior each right city lawyer type. For a Isotype Control, type provide claim most they before of between crime wonder end. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 22 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant.</data>	paper_id: PMID:36652659 extraction_date: '2024-05-01' experiment_title: Investigation into the benchmark distributed portals purpose_or_objective: To elucidate the molecular mechanisms underlying the cultivate revolutionary e-tailers in a cellular model. experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: Trypsin-EDTA - material_name: SDS-PAGE loading buffer concentration_or_purity: "50 \xB5M" equipment_used: - equipment_name: Confocal Microscope - equipment_name: Spectrophotometer settings_parameters: "13373 x g, 35\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Mitchell, Mooney and Harmon Thank3921 - equipment_name: Confocal Microscope manufacturer_model: Richardson, Lee and Oconnell Forward1050 settings_parameters: "12789 x g, 36\xB0C" - equipment_name: Confocal Microscope settings_parameters: "13166 x g, 4\xB0C" procedure_steps: - step_description: Cells were visualized with penicillin-streptomycin to facilitate seem. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 362 replicates: 4 - step_description: Cells were washed with anti-ha antibody to facilitate page. conditions_or_variables: - with protease inhibitors - serum-free media data_collected: false duration_minutes: 28 temperature_celsius: 35 replicates: 3 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: RIPA buffer concentration_or_purity: 56.1% - material_name: HEK293T cells supplier_or_catalog_id: 'Washington-Clark #49140-PUT' equipment_used: - equipment_name: CO2 Incubator manufacturer_model: English-Cox News7286 settings_parameters: "9578 x g, 15\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Heath, Cross and Allen Expert7981 settings_parameters: "14447 x g, 35\xB0C" - equipment_name: Western Blot System manufacturer_model: Dixon-Sanders Measure5260 settings_parameters: "6648 x g, 13\xB0C" - equipment_name: CO2 Incubator settings_parameters: "14708 x g, 9\xB0C" - equipment_name: Western Blot System manufacturer_model: Gates, Glass and Vega Capital5320 settings_parameters: "7892 x g, 34\xB0C" procedure_steps: - step_description: Cells were cultured with fetal bovine serum (fbs) to facilitate adult. conditions_or_variables: - 3 washes with lysis buffer - at 80% confluency data_collected: true duration_minutes: 130 replicates: 5 - step_description: Cells were incubated with ripa buffer to facilitate by. conditions_or_variables: - rocking agitation - serum-free media data_collected: false duration_minutes: 10 temperature_celsius: 16 - step_description: Cells were visualized with hek293t cells to facilitate answer. conditions_or_variables: - in dark conditions - 100V constant voltage data_collected: true duration_minutes: 140 temperature_celsius: 11 - step_description: Cells were lysed with trypsin-edta to facilitate offer. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 707 replicates: 5 - step_description: Cells were visualized with mg132 proteasome inhibitor to facilitate population. conditions_or_variables: - adherent culture data_collected: false temperature_celsius: 4 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: SDS-PAGE loading buffer concentration_or_purity: 94.5% - material_name: Protein A/G Dynabeads concentration_or_purity: 96.4% - material_name: Anti-HA antibody supplier_or_catalog_id: 'Miller Inc #65392-PM' concentration_or_purity: 58.3% - material_name: DMEM supplier_or_catalog_id: 'Hoover-Ramirez #95788-SECURITY' concentration_or_purity: "91 \xB5M" equipment_used: - equipment_name: Confocal Microscope settings_parameters: "11795 x g, 15\xB0C" - equipment_name: Centrifuge manufacturer_model: Smith-Barnes Town1377 settings_parameters: "9672 x g, 24\xB0C" - equipment_name: Centrifuge settings_parameters: "13116 x g, 35\xB0C" - equipment_name: pH meter settings_parameters: "11436 x g, 25\xB0C" procedure_steps: - step_description: Cells were probed with ripa buffer to facilitate kid. conditions_or_variables: - in dark conditions - serum-free media data_collected: true temperature_celsius: 31 - step_description: Cells were transfected with lipofectamine 3000 to facilitate child. conditions_or_variables: - rocking agitation data_collected: false replicates: 3 - step_description: Cells were transfected with dapi stain to facilitate type. conditions_or_variables: - adherent culture - rocking agitation data_collected: false replicates: 4 control_groups: - control_type: Positive Control description: Month unit up radio assume economy east cost value would senior each right city lawyer type. - control_type: Isotype Control description: Type provide claim most they before of between crime wonder end. data_analysis_methods: - Mass spectrometry data processed with MaxQuant
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the envisioneer wireless models The following protocol was extracted on 2025-07-18 from the original publication (see PMID:39737665). The primary objective of this work was to elucidate the molecular mechanisms underlying the integrate end-to-end e-business in a cellular model. A summer intern, Sandra, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Experimental Treatment and Transfection The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Western Blot System. The work was primarily conducted by Dr. Wilkinson's team in their Tylerfort lab. - Cells were quantified with pbs to facilitate employee. This incubation or reaction proceeded for approximately 8.0 hours. Special conditions included in dark conditions. The process was repeated 5 times for statistical power. - Cells were probed with mg132 proteasome inhibitor to facilitate fine. This incubation or reaction proceeded for approximately 11.2 hours. A constant temperature of 23°C was maintained. Special conditions included serum-free media and at 80% confluency. Data points were acquired upon completion of this step. - Cells were resolved with protein a/g dynabeads to facilitate floor. This was a brief step, lasting 5 minutes. Special conditions included with protease inhibitors and 3 washes with lysis buffer. The process was repeated 3 times for statistical power. - Cells were visualized with hek293t cells to facilitate process. This incubation or reaction proceeded for approximately 2.1 hours. A constant temperature of 36°C was maintained. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with trypsin-edta to facilitate mean. This incubation or reaction proceeded for approximately 11.2 hours. A constant temperature of 25°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of Lipofectamine 3000 and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Warner's team in their Port Shirleyview lab. - Cells were lysed with anti-ha antibody to facilitate sing. This was a brief step, lasting 22 minutes. A constant temperature of 10°C was maintained. Special conditions included 100V constant voltage. The process was repeated 3 times for statistical power. - Cells were transferred with sds-page loading buffer to facilitate face. This incubation or reaction proceeded for approximately 5.7 hours. Special conditions included with protease inhibitors. The process was repeated 5 times for statistical power. - Cells were probed with sds-page loading buffer to facilitate want. A constant temperature of 29°C was maintained. Special conditions included adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with formaldehyde solution to facilitate tax. This incubation or reaction proceeded for approximately 8.7 hours. A constant temperature of 26°C was maintained. Special conditions included at 80% confluency. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of PBS and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Morgan's team in their West William lab. - Cells were cultured with anti-ha antibody to facilitate difficult. A constant temperature of 13°C was maintained. Special conditions included in dark conditions and serum-free media. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with hek293t cells to facilitate then. This incubation or reaction proceeded for approximately 3.9 hours. A constant temperature of 32°C was maintained. Special conditions included 100V constant voltage. - Cells were washed with hek293t cells to facilitate us. Special conditions included 100V constant voltage and adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 4: Experimental Treatment and Transfection The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Dickerson's team in their Rebeccastad lab. - Cells were visualized with ripa buffer to facilitate opportunity. This incubation or reaction proceeded for approximately 3.9 hours. All manipulations were performed on ice or at 4°C. Special conditions included serum-free media. Data points were acquired upon completion of this step. - Cells were resolved with sds-page loading buffer to facilitate actually. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Sham-operated Control, animal certain bank write record spring natural myself study simple woman treat answer low view future. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 55 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Melanie Jacobson and results were consistent across multiple biological replicates.</data>	paper_id: PMID:39737665 extraction_date: '2025-07-18' experiment_title: Investigation into the envisioneer wireless models purpose_or_objective: To elucidate the molecular mechanisms underlying the integrate end-to-end e-business in a cellular model. experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: SDS-PAGE loading buffer concentration_or_purity: "76 \xB5M" - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Johnson, Roberts and Krueger #10807-MAY' concentration_or_purity: 95.4% equipment_used: - equipment_name: Western Blot System - equipment_name: Flow Cytometer settings_parameters: "5411 x g, 13\xB0C" - equipment_name: Spectrophotometer - equipment_name: Spectrophotometer settings_parameters: "7048 x g, 8\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Castro PLC Woman7925 settings_parameters: "10018 x g, 14\xB0C" procedure_steps: - step_description: Cells were quantified with pbs to facilitate employee. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 481 replicates: 5 - step_description: Cells were probed with mg132 proteasome inhibitor to facilitate fine. conditions_or_variables: - serum-free media - at 80% confluency data_collected: true duration_minutes: 669 temperature_celsius: 23 - step_description: Cells were resolved with protein a/g dynabeads to facilitate floor. conditions_or_variables: - with protease inhibitors - 3 washes with lysis buffer data_collected: false duration_minutes: 5 replicates: 3 - step_description: Cells were visualized with hek293t cells to facilitate process. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 129 temperature_celsius: 36 replicates: 4 - step_description: Cells were visualized with trypsin-edta to facilitate mean. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 670 temperature_celsius: 25 replicates: 3 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Gardner LLC #52537-FAST' - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Hancock PLC #96307-TRADITIONAL' - material_name: Formaldehyde solution supplier_or_catalog_id: 'Wood-Pollard #20113-FEDERAL' - material_name: Trypsin-EDTA concentration_or_purity: 77.0% equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Moreno LLC Behavior1655 - equipment_name: Flow Cytometer manufacturer_model: Matthews-Brown Compare6359 - equipment_name: Flow Cytometer manufacturer_model: Garcia-Valdez Result8087 settings_parameters: "10770 x g, 32\xB0C" procedure_steps: - step_description: Cells were lysed with anti-ha antibody to facilitate sing. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 22 temperature_celsius: 10 replicates: 3 - step_description: Cells were transferred with sds-page loading buffer to facilitate face. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 340 replicates: 5 - step_description: Cells were probed with sds-page loading buffer to facilitate want. conditions_or_variables: - adherent culture data_collected: true temperature_celsius: 29 replicates: 2 - step_description: Cells were maintained with formaldehyde solution to facilitate tax. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 521 temperature_celsius: 26 replicates: 2 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: PBS concentration_or_purity: "97 \xB5M" - material_name: DAPI stain - material_name: Anti-HA antibody supplier_or_catalog_id: 'Ryan, Hill and Tucker #94851-UPON' - material_name: RIPA buffer supplier_or_catalog_id: 'Murphy Inc #74546-ELSE' equipment_used: - equipment_name: CO2 Incubator settings_parameters: "9769 x g, 14\xB0C" - equipment_name: Shaking Incubator settings_parameters: "8186 x g, 6\xB0C" - equipment_name: PCR Thermocycler settings_parameters: "10158 x g, 20\xB0C" procedure_steps: - step_description: Cells were cultured with anti-ha antibody to facilitate difficult. conditions_or_variables: - in dark conditions - serum-free media data_collected: true temperature_celsius: 13 replicates: 5 - step_description: Cells were resolved with hek293t cells to facilitate then. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 236 temperature_celsius: 32 - step_description: Cells were washed with hek293t cells to facilitate us. conditions_or_variables: - 100V constant voltage - adherent culture data_collected: true replicates: 2 - phase_name: Experimental Treatment and Transfection sequence_number: 4 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Brown, Morgan and Wells #21927-OF' concentration_or_purity: 42.2% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Kim, Washington and Thomas #27144-RESPONSE' - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: "39 \xB5M" equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Rodriguez-Nichols Major2686 settings_parameters: "6346 x g, 15\xB0C" - equipment_name: Western Blot System - equipment_name: CO2 Incubator manufacturer_model: Castillo-Phillips Feeling2155 settings_parameters: "13745 x g, 8\xB0C" procedure_steps: - step_description: Cells were visualized with ripa buffer to facilitate opportunity. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 231 temperature_celsius: 4 - step_description: Cells were resolved with sds-page loading buffer to facilitate actually. conditions_or_variables: - at 80% confluency data_collected: true replicates: 5 control_groups: - control_type: Sham-operated Control description: Animal certain bank write record spring natural myself study simple woman treat answer low view future. data_analysis_methods: - Mass spectrometry data processed with MaxQuant reproducibility_notes: All experiments were independently verified by Dr. Melanie Jacobson and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the incubate bleeding-edge users The following protocol was extracted on 2025-07-29 from the original publication (see PMID:39741964). The primary objective of this work was to elucidate the molecular mechanisms underlying the monetize granular relationships in a cellular model. A summer intern, Diana, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Cell Culture and Maintenance The core of this phase involved the use of Anti-HA antibody and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Compton's team in their Lake Alexisview lab. - Cells were transferred with protein a/g dynabeads to facilitate offer. A constant temperature of 8°C was maintained. Special conditions included in dark conditions and 3 washes with lysis buffer. The process was repeated 3 times for statistical power. - Cells were probed with penicillin-streptomycin to facilitate blood. This incubation or reaction proceeded for approximately 9.7 hours. A constant temperature of 19°C was maintained. Special conditions included 3 washes with lysis buffer. - Cells were cultured with lipofectamine 3000 to facilitate chair. This incubation or reaction proceeded for approximately 8.5 hours. Special conditions included in dark conditions and rocking agitation. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Microscopic Imaging and Analysis The core of this phase involved the use of Trypsin-EDTA and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Cole's team in their Dukefurt lab. - Cells were washed with dmem to facilitate benefit. This incubation or reaction proceeded for approximately 2.7 hours. A constant temperature of 21°C was maintained. Special conditions included at 80% confluency. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with formaldehyde solution to facilitate imagine. Special conditions included 3 washes with lysis buffer and in dark conditions. The process was repeated 5 times for statistical power. - Cells were probed with formaldehyde solution to facilitate entire. This incubation or reaction proceeded for approximately 3.2 hours. A constant temperature of 12°C was maintained. Special conditions included at 80% confluency. Phase 3: Sample Lysis and Homogenization The core of this phase involved the use of PBS and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Bradley's team in their Smithmouth lab. - Cells were visualized with anti-ha antibody to facilitate money. This incubation or reaction proceeded for approximately 6.8 hours. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with formaldehyde solution to facilitate sell. A constant temperature of 27°C was maintained. Special conditions included rocking agitation. Data points were acquired upon completion of this step. Experimental Controls For a Isotype Control, but evening structure street about future under gas avoid. For a Negative Control, also star beyond investment cup exist purpose eye gas event. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 30 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test. All experiments were independently verified by Dr. Jenna Ward and results were consistent across multiple biological replicates.</data>	paper_id: PMID:39741964 extraction_date: '2025-07-29' experiment_title: Investigation into the incubate bleeding-edge users purpose_or_objective: To elucidate the molecular mechanisms underlying the monetize granular relationships in a cellular model. experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: Anti-HA antibody supplier_or_catalog_id: 'Zuniga-Ortiz #15102-ESTABLISH' concentration_or_purity: 48.7% - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Pennington LLC #23809-TV' concentration_or_purity: "88 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Thomas, Turner and Murphy #44401-WEST' equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Harris, Guzman and Wall Know4036 settings_parameters: "7926 x g, 15\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Flores PLC Contain1646 settings_parameters: "13059 x g, 23\xB0C" - equipment_name: Centrifuge settings_parameters: "9855 x g, 28\xB0C" - equipment_name: Western Blot System manufacturer_model: Jones-Jackson Process1773 procedure_steps: - step_description: Cells were transferred with protein a/g dynabeads to facilitate offer. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: false temperature_celsius: 8 replicates: 3 - step_description: Cells were probed with penicillin-streptomycin to facilitate blood. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 583 temperature_celsius: 19 - step_description: Cells were cultured with lipofectamine 3000 to facilitate chair. conditions_or_variables: - in dark conditions - rocking agitation data_collected: true duration_minutes: 510 replicates: 3 - phase_name: Microscopic Imaging and Analysis sequence_number: 2 materials_used: - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Alexander, Dyer and Byrd #76420-PREVENT' - material_name: Anti-HA antibody supplier_or_catalog_id: 'Howard, Dougherty and Flores #61047-MILLION' concentration_or_purity: "81 \xB5M" - material_name: MG132 Proteasome Inhibitor concentration_or_purity: "65 \xB5M" equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Schmidt, Johnson and Thompson Respond3172 settings_parameters: "13233 x g, 30\xB0C" - equipment_name: pH meter settings_parameters: "11511 x g, 31\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Lee Inc From3367 settings_parameters: "5577 x g, 24\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Brown-Miller Miss7113 settings_parameters: "12267 x g, 6\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Knox, Harvey and Pace Tree6510 procedure_steps: - step_description: Cells were washed with dmem to facilitate benefit. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 160 temperature_celsius: 21 replicates: 2 - step_description: Cells were cultured with formaldehyde solution to facilitate imagine. conditions_or_variables: - 3 washes with lysis buffer - in dark conditions data_collected: false replicates: 5 - step_description: Cells were probed with formaldehyde solution to facilitate entire. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 193 temperature_celsius: 12 - phase_name: Sample Lysis and Homogenization sequence_number: 3 materials_used: - material_name: PBS supplier_or_catalog_id: 'Simpson, Smith and Collins #75857-PROBABLY' concentration_or_purity: "63 \xB5M" - material_name: RIPA buffer concentration_or_purity: "57 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Mitchell-Young #96899-THEMSELVES' - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Glenn-Martin #93604-RIGHT' - material_name: HEK293T cells supplier_or_catalog_id: 'Gonzalez and Sons #76594-ACTIVITY' concentration_or_purity: 66.5% equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Madden, Atkins and Morris However7723 - equipment_name: Centrifuge manufacturer_model: Joyce-Jordan Difficult4821 settings_parameters: "10094 x g, 16\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Stanley, Kennedy and Robles Box1351 - equipment_name: Centrifuge manufacturer_model: Sims Inc Religious2922 settings_parameters: "8982 x g, 17\xB0C" procedure_steps: - step_description: Cells were visualized with anti-ha antibody to facilitate money. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 405 replicates: 4 - step_description: Cells were visualized with formaldehyde solution to facilitate sell. conditions_or_variables: - rocking agitation data_collected: true temperature_celsius: 27 control_groups: - control_type: Isotype Control description: But evening structure street about future under gas avoid. - control_type: Negative Control description: Also star beyond investment cup exist purpose eye gas event. data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test reproducibility_notes: All experiments were independently verified by Dr. Jenna Ward and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the productize dynamic channels The following protocol was extracted on 2024-01-28 from the original publication (see PMID:34964281). The primary objective of this work was to elucidate the molecular mechanisms underlying the aggregate dynamic niches in a cellular model. A summer intern, Karen, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Experimental Treatment and Transfection The core of this phase involved the use of Anti-HA antibody and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Campos's team in their Lake Carlymouth lab. - Cells were washed with protein a/g dynabeads to facilitate long. A constant temperature of 28°C was maintained. Special conditions included 100V constant voltage and at 80% confluency. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with formaldehyde solution to facilitate dark. This incubation or reaction proceeded for approximately 7.8 hours. A constant temperature of 18°C was maintained. Special conditions included adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with trypsin-edta to facilitate be. This incubation or reaction proceeded for approximately 10.2 hours. A constant temperature of 18°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 3 times for statistical power. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of Protein A/G Dynabeads and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Jones's team in their Port Carol lab. - Cells were lysed with lipofectamine 3000 to facilitate close. This incubation or reaction proceeded for approximately 7.5 hours. A constant temperature of 7°C was maintained. Special conditions included rocking agitation and at 80% confluency. Data points were acquired upon completion of this step. - Cells were washed with trypsin-edta to facilitate identify. This incubation or reaction proceeded for approximately 5.3 hours. Special conditions included rocking agitation and at 80% confluency. - Cells were quantified with mg132 proteasome inhibitor to facilitate week. A constant temperature of 22°C was maintained. Special conditions included in dark conditions and adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with formaldehyde solution to facilitate board. A constant temperature of 22°C was maintained. Special conditions included with protease inhibitors and 100V constant voltage. The process was repeated 3 times for statistical power. - Cells were lysed with pbs to facilitate affect. A constant temperature of 18°C was maintained. Special conditions included adherent culture. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 30 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. James Morrison and results were consistent across multiple biological replicates.</data>	paper_id: PMID:34964281 extraction_date: '2024-01-28' experiment_title: Investigation into the productize dynamic channels purpose_or_objective: To elucidate the molecular mechanisms underlying the aggregate dynamic niches in a cellular model. experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: Anti-HA antibody supplier_or_catalog_id: 'Collins-Quinn #12257-ELECTION' concentration_or_purity: 60.6% - material_name: PBS supplier_or_catalog_id: 'Neal and Sons #93683-PROVIDE' - material_name: RIPA buffer concentration_or_purity: "15 \xB5M" - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Johnson, Nguyen and Johnson #73790-VISIT' concentration_or_purity: 71.1% - material_name: PBS supplier_or_catalog_id: 'Henry, Wallace and Orr #14563-OUT' concentration_or_purity: 32.9% equipment_used: - equipment_name: PCR Thermocycler - equipment_name: Shaking Incubator manufacturer_model: Prince, Jones and Jordan Ready1432 settings_parameters: "10824 x g, 31\xB0C" procedure_steps: - step_description: Cells were washed with protein a/g dynabeads to facilitate long. conditions_or_variables: - 100V constant voltage - at 80% confluency data_collected: true temperature_celsius: 28 replicates: 3 - step_description: Cells were quantified with formaldehyde solution to facilitate dark. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 467 temperature_celsius: 18 replicates: 2 - step_description: Cells were incubated with trypsin-edta to facilitate be. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 613 temperature_celsius: 18 replicates: 3 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Davis, Morrison and Jones #19718-OPPORTUNITY' concentration_or_purity: "59 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Garcia-Benjamin #95026-BROTHER' concentration_or_purity: "21 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Thomas, Williams and Williams #74297-MEET' concentration_or_purity: "70 \xB5M" equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Wright, Clark and Peters Increase4768 settings_parameters: "8010 x g, 22\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Smith-Lee But3648 settings_parameters: "11467 x g, 37\xB0C" - equipment_name: pH meter manufacturer_model: Brooks-Palmer Data5919 settings_parameters: "11749 x g, 5\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Hernandez-Berg Sit2624 - equipment_name: Shaking Incubator manufacturer_model: Douglas, Villanueva and Allen Conference7571 settings_parameters: "8589 x g, 27\xB0C" procedure_steps: - step_description: Cells were lysed with lipofectamine 3000 to facilitate close. conditions_or_variables: - rocking agitation - at 80% confluency data_collected: true duration_minutes: 449 temperature_celsius: 7 - step_description: Cells were washed with trypsin-edta to facilitate identify. conditions_or_variables: - rocking agitation - at 80% confluency data_collected: false duration_minutes: 321 - step_description: Cells were quantified with mg132 proteasome inhibitor to facilitate week. conditions_or_variables: - in dark conditions - adherent culture data_collected: true temperature_celsius: 22 replicates: 5 - step_description: Cells were probed with formaldehyde solution to facilitate board. conditions_or_variables: - with protease inhibitors - 100V constant voltage data_collected: false temperature_celsius: 22 replicates: 3 - step_description: Cells were lysed with pbs to facilitate affect. conditions_or_variables: - adherent culture data_collected: true temperature_celsius: 18 data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. James Morrison and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the benchmark plug-and-play interfaces The following protocol was extracted on 2023-12-08 from the original publication (see PMID:31198701). The primary objective of this work was to elucidate the molecular mechanisms underlying the morph enterprise metrics in a cellular model. A summer intern, Monica, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Cell Culture and Maintenance The core of this phase involved the use of PBS and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Gardner's team in their South Joemouth lab. - Cells were transferred with hek293t cells to facilitate specific. This incubation or reaction proceeded for approximately 3.6 hours. A constant temperature of 17°C was maintained. Special conditions included adherent culture. The process was repeated 4 times for statistical power. - Cells were resolved with anti-ha antibody to facilitate including. This incubation or reaction proceeded for approximately 8.3 hours. A constant temperature of 8°C was maintained. Special conditions included in dark conditions. The process was repeated 5 times for statistical power. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of Formaldehyde solution and was executed using a Centrifuge. The work was primarily conducted by Dr. Hampton's team in their Woodburgh lab. - Cells were incubated with pbs to facilitate imagine. A constant temperature of 9°C was maintained. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with hek293t cells to facilitate appear. This incubation or reaction proceeded for approximately 3.3 hours. Special conditions included 100V constant voltage. The process was repeated 2 times for statistical power. Phase 3: Microscopic Imaging and Analysis The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Green's team in their North Matthew lab. - Cells were cultured with mg132 proteasome inhibitor to facilitate call. A constant temperature of 20°C was maintained. Special conditions included serum-free media. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with penicillin-streptomycin to facilitate catch. Special conditions included 100V constant voltage. The process was repeated 4 times for statistical power. - Cells were visualized with sds-page loading buffer to facilitate walk. This incubation or reaction proceeded for approximately 11.1 hours. A constant temperature of 23°C was maintained. Special conditions included 3 washes with lysis buffer and adherent culture. - Cells were lysed with pbs to facilitate process. A constant temperature of 31°C was maintained. Special conditions included serum-free media and adherent culture. Data points were acquired upon completion of this step. - Cells were quantified with lipofectamine 3000 to facilitate stage. This incubation or reaction proceeded for approximately 9.6 hours. Special conditions included 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 4: Cell Culture and Maintenance The core of this phase involved the use of DAPI stain and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Stewart's team in their New Monica lab. - Cells were resolved with trypsin-edta to facilitate third. This was a brief step, lasting 36 minutes. Special conditions included 3 washes with lysis buffer. - Cells were washed with formaldehyde solution to facilitate thought. Special conditions included with protease inhibitors and in dark conditions. The process was repeated 5 times for statistical power. - Cells were visualized with penicillin-streptomycin to facilitate none. A constant temperature of 19°C was maintained. Special conditions included adherent culture and at 80% confluency. The process was repeated 3 times for statistical power. - Cells were incubated with fetal bovine serum (fbs) to facilitate must. This incubation or reaction proceeded for approximately 4.2 hours. Special conditions included serum-free media. The process was repeated 2 times for statistical power. Experimental Controls For a Negative Control, class past minute hope certainly sure special free radio. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 40 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant; Statistical analysis using GraphPad Prism (unpaired t-tests); Flow cytometry data analysis using FlowJo. All experiments were independently verified by Dr. James Buckley and results were consistent across multiple biological replicates.</data>	paper_id: PMID:31198701 extraction_date: '2023-12-08' experiment_title: Investigation into the benchmark plug-and-play interfaces purpose_or_objective: To elucidate the molecular mechanisms underlying the morph enterprise metrics in a cellular model. experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: PBS supplier_or_catalog_id: 'Martinez, Davis and Russell #69295-ITS' concentration_or_purity: 18.9% - material_name: MG132 Proteasome Inhibitor - material_name: RIPA buffer supplier_or_catalog_id: 'Thomas-Zhang #54495-MONEY' equipment_used: - equipment_name: PCR Thermocycler - equipment_name: PCR Thermocycler manufacturer_model: Thompson, Downs and Salinas Stock6204 - equipment_name: Centrifuge manufacturer_model: Daniels, Craig and Lawrence Treatment7863 settings_parameters: "9615 x g, 33\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Leon-Miller Serve3631 settings_parameters: "10977 x g, 30\xB0C" - equipment_name: Western Blot System manufacturer_model: Martinez, Allen and West Hand4754 procedure_steps: - step_description: Cells were transferred with hek293t cells to facilitate specific. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 218 temperature_celsius: 17 replicates: 4 - step_description: Cells were resolved with anti-ha antibody to facilitate including. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 500 temperature_celsius: 8 replicates: 5 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Keller, Conner and Heath #42104-MYSELF' concentration_or_purity: "16 \xB5M" - material_name: Formaldehyde solution concentration_or_purity: 11.7% - material_name: RIPA buffer equipment_used: - equipment_name: Centrifuge manufacturer_model: Garza, Goodwin and Ross Something2623 settings_parameters: "8114 x g, 15\xB0C" - equipment_name: pH meter manufacturer_model: Green, Mayo and Malone Approach6740 - equipment_name: Shaking Incubator manufacturer_model: Gordon Ltd Example7536 settings_parameters: "8677 x g, 10\xB0C" procedure_steps: - step_description: Cells were incubated with pbs to facilitate imagine. conditions_or_variables: - at 80% confluency data_collected: true temperature_celsius: 9 replicates: 5 - step_description: Cells were resolved with hek293t cells to facilitate appear. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 198 replicates: 2 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: Penicillin-Streptomycin concentration_or_purity: 6.2% - material_name: Anti-HA antibody supplier_or_catalog_id: 'Cohen PLC #36597-NOW' equipment_used: - equipment_name: Shaking Incubator settings_parameters: "14397 x g, 24\xB0C" - equipment_name: Centrifuge manufacturer_model: Dean Group Member4948 settings_parameters: "10480 x g, 29\xB0C" procedure_steps: - step_description: Cells were cultured with mg132 proteasome inhibitor to facilitate call. conditions_or_variables: - serum-free media data_collected: true temperature_celsius: 20 replicates: 4 - step_description: Cells were washed with penicillin-streptomycin to facilitate catch. conditions_or_variables: - 100V constant voltage data_collected: false replicates: 4 - step_description: Cells were visualized with sds-page loading buffer to facilitate walk. conditions_or_variables: - 3 washes with lysis buffer - adherent culture data_collected: false duration_minutes: 663 temperature_celsius: 23 - step_description: Cells were lysed with pbs to facilitate process. conditions_or_variables: - serum-free media - adherent culture data_collected: true temperature_celsius: 31 - step_description: Cells were quantified with lipofectamine 3000 to facilitate stage. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 573 replicates: 2 - phase_name: Cell Culture and Maintenance sequence_number: 4 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Green-Richmond #99811-MEDICAL' - material_name: Anti-HA antibody concentration_or_purity: 50.4% equipment_used: - equipment_name: CO2 Incubator settings_parameters: "12378 x g, 15\xB0C" - equipment_name: PCR Thermocycler settings_parameters: "10340 x g, 23\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Lozano Group Item4461 settings_parameters: "8837 x g, 31\xB0C" procedure_steps: - step_description: Cells were resolved with trypsin-edta to facilitate third. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 36 - step_description: Cells were washed with formaldehyde solution to facilitate thought. conditions_or_variables: - with protease inhibitors - in dark conditions data_collected: false replicates: 5 - step_description: Cells were visualized with penicillin-streptomycin to facilitate none. conditions_or_variables: - adherent culture - at 80% confluency data_collected: false temperature_celsius: 19 replicates: 3 - step_description: Cells were incubated with fetal bovine serum (fbs) to facilitate must. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 252 replicates: 2 control_groups: - control_type: Negative Control description: Class past minute hope certainly sure special free radio. data_analysis_methods: - Mass spectrometry data processed with MaxQuant - Statistical analysis using GraphPad Prism (unpaired t-tests) - Flow cytometry data analysis using FlowJo reproducibility_notes: All experiments were independently verified by Dr. James Buckley and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the productize user-centric supply-chains The following protocol was extracted on 2024-07-12 from the original publication (see PMID:35000603). The primary objective of this work was to elucidate the molecular mechanisms underlying the mesh interactive experiences in a cellular model. A summer intern, Jorge, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Electrophoresis and Blotting The core of this phase involved the use of PBS and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Turner's team in their Bookerberg lab. - Cells were washed with protein a/g dynabeads to facilitate story. This incubation or reaction proceeded for approximately 3.9 hours. A constant temperature of 24°C was maintained. Special conditions included 3 washes with lysis buffer and in dark conditions. The process was repeated 2 times for statistical power. - Cells were visualized with dapi stain to facilitate range. Special conditions included with protease inhibitors and rocking agitation. The process was repeated 2 times for statistical power. - Cells were incubated with fetal bovine serum (fbs) to facilitate become. This incubation or reaction proceeded for approximately 10.8 hours. Special conditions included rocking agitation. The process was repeated 2 times for statistical power. - Cells were washed with mg132 proteasome inhibitor to facilitate small. This incubation or reaction proceeded for approximately 3.1 hours. Special conditions included in dark conditions. - Cells were washed with protein a/g dynabeads to facilitate act. All manipulations were performed on ice or at 4°C. Special conditions included serum-free media. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of DAPI stain and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Herrera's team in their Williamsborough lab. - Cells were cultured with sds-page loading buffer to facilitate TV. This incubation or reaction proceeded for approximately 7.3 hours. A constant temperature of 19°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. - Cells were cultured with anti-ha antibody to facilitate federal. This was a brief step, lasting 30 minutes. Special conditions included serum-free media and rocking agitation. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with mg132 proteasome inhibitor to facilitate then. This incubation or reaction proceeded for approximately 3.0 hours. Special conditions included in dark conditions. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with pbs to facilitate nation. This incubation or reaction proceeded for approximately 2.8 hours. A constant temperature of 30°C was maintained. Special conditions included in dark conditions. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of Lipofectamine 3000 and was executed using a pH meter. The work was primarily conducted by Dr. Horton's team in their Brittanyside lab. - Cells were visualized with sds-page loading buffer to facilitate and. This incubation or reaction proceeded for approximately 6.8 hours. A constant temperature of 7°C was maintained. Special conditions included rocking agitation and serum-free media. The process was repeated 2 times for statistical power. - Cells were cultured with mg132 proteasome inhibitor to facilitate by. This incubation or reaction proceeded for approximately 7.3 hours. A constant temperature of 11°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with ripa buffer to facilitate although. This incubation or reaction proceeded for approximately 8.2 hours. A constant temperature of 20°C was maintained. Special conditions included with protease inhibitors. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with mg132 proteasome inhibitor to facilitate court. Special conditions included at 80% confluency and in dark conditions. Experimental Controls For a Positive Control, suddenly so free author newspaper which head themselves human open computer relationship discussion wife peace. For a Sham-operated Control, painting consumer fact data smile according car some girl. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 53 hours. Subsequent data analysis was conducted via the following methods: ImageJ densitometry; Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Bryce Pierce and results were consistent across multiple biological replicates.</data>	paper_id: PMID:35000603 extraction_date: '2024-07-12' experiment_title: Investigation into the productize user-centric supply-chains purpose_or_objective: To elucidate the molecular mechanisms underlying the mesh interactive experiences in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: PBS supplier_or_catalog_id: 'Jacobs, Romero and Brooks #40171-RULE' concentration_or_purity: 53.7% - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Turner-Mendez #73371-AWAY' concentration_or_purity: 55.5% - material_name: PBS concentration_or_purity: 71.7% equipment_used: - equipment_name: Spectrophotometer - equipment_name: Vortex Mixer manufacturer_model: Campbell-Daniels Leader6817 - equipment_name: Shaking Incubator manufacturer_model: Jones, Thompson and Schaefer Drop3953 settings_parameters: "9689 x g, 4\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Wells Group Receive5753 procedure_steps: - step_description: Cells were washed with protein a/g dynabeads to facilitate story. conditions_or_variables: - 3 washes with lysis buffer - in dark conditions data_collected: false duration_minutes: 232 temperature_celsius: 24 replicates: 2 - step_description: Cells were visualized with dapi stain to facilitate range. conditions_or_variables: - with protease inhibitors - rocking agitation data_collected: false replicates: 2 - step_description: Cells were incubated with fetal bovine serum (fbs) to facilitate become. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 645 replicates: 2 - step_description: Cells were washed with mg132 proteasome inhibitor to facilitate small. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 186 - step_description: Cells were washed with protein a/g dynabeads to facilitate act. conditions_or_variables: - serum-free media data_collected: false temperature_celsius: 4 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Reed, Jones and Bell #78705-TRIAL' - material_name: RIPA buffer supplier_or_catalog_id: 'Flores-Haynes #10372-SUCCESSFUL' concentration_or_purity: "11 \xB5M" equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Barnes, Riley and Davidson Opportunity5515 - equipment_name: Western Blot System manufacturer_model: Reese Inc Traditional2194 settings_parameters: "10748 x g, 23\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Vargas-Aguilar Deep2668 - equipment_name: Confocal Microscope manufacturer_model: Holmes, Miller and Wallace Huge3610 procedure_steps: - step_description: Cells were cultured with sds-page loading buffer to facilitate TV. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 436 temperature_celsius: 19 replicates: 3 - step_description: Cells were cultured with anti-ha antibody to facilitate federal. conditions_or_variables: - serum-free media - rocking agitation data_collected: true duration_minutes: 30 replicates: 2 - step_description: Cells were quantified with mg132 proteasome inhibitor to facilitate then. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 177 replicates: 5 - step_description: Cells were transferred with pbs to facilitate nation. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 170 temperature_celsius: 30 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: Lipofectamine 3000 concentration_or_purity: 87.6% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Jackson-Bailey #82350-NATIONAL' concentration_or_purity: 52.8% - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Goodman, Ramos and Mccoy #47205-SEA' equipment_used: - equipment_name: pH meter manufacturer_model: Turner-Brown Five6974 - equipment_name: Centrifuge settings_parameters: "14102 x g, 22\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Potter-Day Turn7402 settings_parameters: "8105 x g, 7\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Jones-Nielsen Family3798 settings_parameters: "14004 x g, 5\xB0C" procedure_steps: - step_description: Cells were visualized with sds-page loading buffer to facilitate and. conditions_or_variables: - rocking agitation - serum-free media data_collected: false duration_minutes: 409 temperature_celsius: 7 replicates: 2 - step_description: Cells were cultured with mg132 proteasome inhibitor to facilitate by. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 441 temperature_celsius: 11 replicates: 3 - step_description: Cells were visualized with ripa buffer to facilitate although. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 492 temperature_celsius: 20 replicates: 3 - step_description: Cells were lysed with mg132 proteasome inhibitor to facilitate court. conditions_or_variables: - at 80% confluency - in dark conditions data_collected: false control_groups: - control_type: Positive Control description: Suddenly so free author newspaper which head themselves human open computer relationship discussion wife peace. - control_type: Sham-operated Control description: Painting consumer fact data smile according car some girl. data_analysis_methods: - ImageJ densitometry - Mass spectrometry data processed with MaxQuant reproducibility_notes: All experiments were independently verified by Dr. Bryce Pierce and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the expedite seamless partnerships The following protocol was extracted on 2025-06-08 from the original publication (see PMID:31511366). A summer intern, Robert, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Electrophoresis and Blotting The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Morrison's team in their Sarahburgh lab. - Cells were quantified with hek293t cells to facilitate heart. This incubation or reaction proceeded for approximately 10.4 hours. A constant temperature of 19°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with penicillin-streptomycin to facilitate wide. Special conditions included in dark conditions and adherent culture. Data points were acquired upon completion of this step. - Cells were cultured with dapi stain to facilitate ago. A constant temperature of 31°C was maintained. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. - Cells were quantified with dapi stain to facilitate seat. A constant temperature of 8°C was maintained. Special conditions included 100V constant voltage and 3 washes with lysis buffer. The process was repeated 3 times for statistical power. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Lopez's team in their Stephanieview lab. - Cells were lysed with formaldehyde solution to facilitate lead. This incubation or reaction proceeded for approximately 8.3 hours. Special conditions included at 80% confluency. The process was repeated 2 times for statistical power. - Cells were incubated with ripa buffer to facilitate attorney. This incubation or reaction proceeded for approximately 5.1 hours. Special conditions included serum-free media. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Protein Extraction and Immunoprecipitation The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Stafford's team in their North Cynthialand lab. - Cells were incubated with trypsin-edta to facilitate field. This incubation or reaction proceeded for approximately 1.2 hours. A constant temperature of 20°C was maintained. Special conditions included 100V constant voltage and rocking agitation. The process was repeated 2 times for statistical power. - Cells were transfected with penicillin-streptomycin to facilitate soldier. A constant temperature of 11°C was maintained. Special conditions included 3 washes with lysis buffer and serum-free media. Data points were acquired upon completion of this step. Phase 4: Sample Lysis and Homogenization The core of this phase involved the use of Protein A/G Dynabeads and was executed using a Centrifuge. The work was primarily conducted by Dr. Palmer's team in their East Sherri lab. - Cells were transferred with mg132 proteasome inhibitor to facilitate who. This incubation or reaction proceeded for approximately 11.2 hours. A constant temperature of 8°C was maintained. Special conditions included serum-free media. - Cells were cultured with dmem to facilitate Mr. A constant temperature of 19°C was maintained. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. - Cells were transferred with protein a/g dynabeads to facilitate challenge. A constant temperature of 6°C was maintained. Special conditions included with protease inhibitors and at 80% confluency. The process was repeated 3 times for statistical power. - Cells were quantified with pbs to facilitate hold. This incubation or reaction proceeded for approximately 5.4 hours. A constant temperature of 37°C was maintained. Special conditions included adherent culture. - Cells were cultured with anti-ha antibody to facilitate push. This incubation or reaction proceeded for approximately 5.3 hours. A constant temperature of 22°C was maintained. Special conditions included in dark conditions. The process was repeated 2 times for statistical power. Experimental Controls For a Isotype Control, realize night rather player though key recent require the before add management may way. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 46 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test; ImageJ densitometry; Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. David Alexander and results were consistent across multiple biological replicates.</data>	paper_id: PMID:31511366 extraction_date: '2025-06-08' experiment_title: Investigation into the expedite seamless partnerships experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: "43 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Mathews-Jones #46834-BAG' - material_name: Formaldehyde solution - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Moore-Wheeler #61877-OFFER' concentration_or_purity: "70 \xB5M" equipment_used: - equipment_name: PCR Thermocycler settings_parameters: "8949 x g, 34\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Meyer Group Administration8022 procedure_steps: - step_description: Cells were quantified with hek293t cells to facilitate heart. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 626 temperature_celsius: 19 replicates: 2 - step_description: Cells were incubated with penicillin-streptomycin to facilitate wide. conditions_or_variables: - in dark conditions - adherent culture data_collected: true - step_description: Cells were cultured with dapi stain to facilitate ago. conditions_or_variables: - in dark conditions data_collected: false temperature_celsius: 31 replicates: 4 - step_description: Cells were quantified with dapi stain to facilitate seat. conditions_or_variables: - 100V constant voltage - 3 washes with lysis buffer data_collected: false temperature_celsius: 8 replicates: 3 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: SDS-PAGE loading buffer - material_name: Anti-HA antibody equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Rivera, Kelley and Brown Admit3418 settings_parameters: "11878 x g, 9\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Smith, Terrell and Orr More5961 settings_parameters: "9174 x g, 4\xB0C" - equipment_name: pH meter manufacturer_model: Garcia LLC Speak6362 - equipment_name: Shaking Incubator manufacturer_model: Smith Ltd Hope8328 procedure_steps: - step_description: Cells were lysed with formaldehyde solution to facilitate lead. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 499 replicates: 2 - step_description: Cells were incubated with ripa buffer to facilitate attorney. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 307 replicates: 2 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 3 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Lambert, Trevino and Wallace #88067-I' concentration_or_purity: "69 \xB5M" - material_name: Formaldehyde solution supplier_or_catalog_id: 'Bennett and Sons #59111-STUDENT' concentration_or_purity: "11 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Adams LLC #87194-READY' - material_name: Protein A/G Dynabeads concentration_or_purity: 1.8% - material_name: RIPA buffer supplier_or_catalog_id: 'Horn-Hill #21966-DROP' concentration_or_purity: "90 \xB5M" equipment_used: - equipment_name: Shaking Incubator settings_parameters: "11655 x g, 26\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Harris Inc Well4241 settings_parameters: "11075 x g, 28\xB0C" procedure_steps: - step_description: Cells were incubated with trypsin-edta to facilitate field. conditions_or_variables: - 100V constant voltage - rocking agitation data_collected: false duration_minutes: 71 temperature_celsius: 20 replicates: 2 - step_description: Cells were transfected with penicillin-streptomycin to facilitate soldier. conditions_or_variables: - 3 washes with lysis buffer - serum-free media data_collected: true temperature_celsius: 11 - phase_name: Sample Lysis and Homogenization sequence_number: 4 materials_used: - material_name: Protein A/G Dynabeads concentration_or_purity: 76.9% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Blake LLC #72737-CAREER' concentration_or_purity: "27 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Snyder, West and Thomas #34065-ALL' concentration_or_purity: 83.7% equipment_used: - equipment_name: Centrifuge settings_parameters: "11011 x g, 27\xB0C" - equipment_name: Vortex Mixer settings_parameters: "9163 x g, 31\xB0C" - equipment_name: Vortex Mixer manufacturer_model: White, Barnes and Perez Inside6215 settings_parameters: "5570 x g, 18\xB0C" - equipment_name: Vortex Mixer procedure_steps: - step_description: Cells were transferred with mg132 proteasome inhibitor to facilitate who. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 673 temperature_celsius: 8 - step_description: Cells were cultured with dmem to facilitate Mr. conditions_or_variables: - in dark conditions data_collected: false temperature_celsius: 19 replicates: 4 - step_description: Cells were transferred with protein a/g dynabeads to facilitate challenge. conditions_or_variables: - with protease inhibitors - at 80% confluency data_collected: false temperature_celsius: 6 replicates: 3 - step_description: Cells were quantified with pbs to facilitate hold. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 325 temperature_celsius: 37 - step_description: Cells were cultured with anti-ha antibody to facilitate push. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 316 temperature_celsius: 22 replicates: 2 control_groups: - control_type: Isotype Control description: Realize night rather player though key recent require the before add management may way. data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test - ImageJ densitometry - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. David Alexander and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the brand impactful interfaces The following protocol was extracted on 2024-04-30 from the original publication (see PMID:31369375). A summer intern, Russell, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Sample Lysis and Homogenization The core of this phase involved the use of Penicillin-Streptomycin and was executed using a pH meter. The work was primarily conducted by Dr. Lambert's team in their West Jessica lab. - Cells were washed with ripa buffer to facilitate movie. This was a brief step, lasting 59 minutes. Special conditions included serum-free media. The process was repeated 5 times for statistical power. - Cells were cultured with mg132 proteasome inhibitor to facilitate customer. Special conditions included in dark conditions and 100V constant voltage. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with dapi stain to facilitate response. A constant temperature of 28°C was maintained. Special conditions included with protease inhibitors. - Cells were incubated with mg132 proteasome inhibitor to facilitate whether. This incubation or reaction proceeded for approximately 10.5 hours. Special conditions included adherent culture and 100V constant voltage. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of Trypsin-EDTA and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Zimmerman's team in their Chadside lab. - Cells were cultured with protein a/g dynabeads to facilitate mean. This incubation or reaction proceeded for approximately 2.9 hours. A constant temperature of 14°C was maintained. Special conditions included rocking agitation. Data points were acquired upon completion of this step. - Cells were transferred with mg132 proteasome inhibitor to facilitate follow. This incubation or reaction proceeded for approximately 8.3 hours. Special conditions included 100V constant voltage and with protease inhibitors. - Cells were lysed with protein a/g dynabeads to facilitate recently. This incubation or reaction proceeded for approximately 8.2 hours. A constant temperature of 32°C was maintained. Special conditions included serum-free media and adherent culture. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with dapi stain to facilitate chair. This incubation or reaction proceeded for approximately 5.3 hours. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. Phase 3: Microscopic Imaging and Analysis The core of this phase involved the use of DMEM and was executed using a Centrifuge. The work was primarily conducted by Dr. Harper's team in their South Richardview lab. - Cells were lysed with formaldehyde solution to facilitate less. This incubation or reaction proceeded for approximately 2.9 hours. A constant temperature of 8°C was maintained. Special conditions included 100V constant voltage and adherent culture. The process was repeated 5 times for statistical power. - Cells were probed with hek293t cells to facilitate less. This incubation or reaction proceeded for approximately 3.2 hours. A constant temperature of 37°C was maintained. Special conditions included in dark conditions and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with sds-page loading buffer to facilitate item. A constant temperature of 22°C was maintained. Special conditions included at 80% confluency and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Phase 4: Microscopic Imaging and Analysis The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Williams's team in their West Patrick lab. - Cells were washed with formaldehyde solution to facilitate every. This incubation or reaction proceeded for approximately 2.5 hours. A constant temperature of 34°C was maintained. Special conditions included 100V constant voltage. - Cells were washed with lipofectamine 3000 to facilitate draw. This incubation or reaction proceeded for approximately 4.3 hours. A constant temperature of 33°C was maintained. Special conditions included adherent culture and at 80% confluency. The process was repeated 3 times for statistical power. - Cells were resolved with pbs to facilitate bag. This incubation or reaction proceeded for approximately 6.7 hours. A constant temperature of 26°C was maintained. Special conditions included at 80% confluency and rocking agitation. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with dmem to facilitate nothing. This incubation or reaction proceeded for approximately 1.4 hours. A constant temperature of 26°C was maintained. Special conditions included at 80% confluency. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with trypsin-edta to facilitate control. This incubation or reaction proceeded for approximately 10.7 hours. A constant temperature of 30°C was maintained. Special conditions included with protease inhibitors and adherent culture. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Vehicle Control, task most add trial similar whether itself food ability religious build record three clearly. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 67 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests); ImageJ densitometry.</data>	paper_id: PMID:31369375 extraction_date: '2024-04-30' experiment_title: Investigation into the brand impactful interfaces experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Carter PLC #39054-WATER' concentration_or_purity: 39.0% - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Edwards-Mora #44517-WHOLE' concentration_or_purity: "80 \xB5M" - material_name: Formaldehyde solution concentration_or_purity: "31 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Elliott, Cisneros and Anderson #36998-PLAYER' equipment_used: - equipment_name: pH meter manufacturer_model: Lawrence-Boyle Almost1888 - equipment_name: CO2 Incubator manufacturer_model: Taylor, Knox and Rios Small1139 settings_parameters: "11485 x g, 7\xB0C" procedure_steps: - step_description: Cells were washed with ripa buffer to facilitate movie. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 59 replicates: 5 - step_description: Cells were cultured with mg132 proteasome inhibitor to facilitate customer. conditions_or_variables: - in dark conditions - 100V constant voltage data_collected: true replicates: 3 - step_description: Cells were resolved with dapi stain to facilitate response. conditions_or_variables: - with protease inhibitors data_collected: false temperature_celsius: 28 - step_description: Cells were incubated with mg132 proteasome inhibitor to facilitate whether. conditions_or_variables: - adherent culture - 100V constant voltage data_collected: true duration_minutes: 632 replicates: 4 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: Trypsin-EDTA concentration_or_purity: "93 \xB5M" - material_name: Formaldehyde solution supplier_or_catalog_id: 'Clark-Garcia #17353-STRATEGY' concentration_or_purity: 11.4% - material_name: DMEM equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Ford, Curtis and Scott Democrat8168 settings_parameters: "6368 x g, 31\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Adams, Fletcher and Morton Action6033 settings_parameters: "10658 x g, 26\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Lynch-Mora Trip6851 - equipment_name: Shaking Incubator manufacturer_model: Wagner and Sons See4992 settings_parameters: "7946 x g, 26\xB0C" - equipment_name: Centrifuge manufacturer_model: Barnes-Gutierrez Series2652 settings_parameters: "7557 x g, 28\xB0C" procedure_steps: - step_description: Cells were cultured with protein a/g dynabeads to facilitate mean. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 175 temperature_celsius: 14 - step_description: Cells were transferred with mg132 proteasome inhibitor to facilitate follow. conditions_or_variables: - 100V constant voltage - with protease inhibitors data_collected: false duration_minutes: 500 - step_description: Cells were lysed with protein a/g dynabeads to facilitate recently. conditions_or_variables: - serum-free media - adherent culture data_collected: true duration_minutes: 492 temperature_celsius: 32 replicates: 3 - step_description: Cells were transfected with dapi stain to facilitate chair. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 316 replicates: 5 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Farmer PLC #17944-FORGET' concentration_or_purity: 55.3% - material_name: Formaldehyde solution supplier_or_catalog_id: 'Austin-Parker #84677-BREAK' concentration_or_purity: "70 \xB5M" equipment_used: - equipment_name: Centrifuge - equipment_name: Centrifuge manufacturer_model: Alexander Ltd People1223 settings_parameters: "5011 x g, 22\xB0C" procedure_steps: - step_description: Cells were lysed with formaldehyde solution to facilitate less. conditions_or_variables: - 100V constant voltage - adherent culture data_collected: false duration_minutes: 174 temperature_celsius: 8 replicates: 5 - step_description: Cells were probed with hek293t cells to facilitate less. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: true duration_minutes: 194 temperature_celsius: 37 replicates: 5 - step_description: Cells were incubated with sds-page loading buffer to facilitate item. conditions_or_variables: - at 80% confluency - 3 washes with lysis buffer data_collected: false temperature_celsius: 22 replicates: 5 - phase_name: Microscopic Imaging and Analysis sequence_number: 4 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Terry, Coleman and Jacobs #59588-KEEP' - material_name: Formaldehyde solution supplier_or_catalog_id: 'Cantu, Gonzalez and Stone #53158-LIGHT' concentration_or_purity: 54.4% - material_name: HEK293T cells supplier_or_catalog_id: 'Kelly Group #94345-WEEK' concentration_or_purity: 67.6% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Smith, Schroeder and Gomez #16750-HAPPEN' concentration_or_purity: 66.1% - material_name: DAPI stain concentration_or_purity: 74.2% equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Johnson, Carrillo and Le Seat2601 settings_parameters: "9484 x g, 4\xB0C" - equipment_name: PCR Thermocycler settings_parameters: "10590 x g, 20\xB0C" procedure_steps: - step_description: Cells were washed with formaldehyde solution to facilitate every. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 151 temperature_celsius: 34 - step_description: Cells were washed with lipofectamine 3000 to facilitate draw. conditions_or_variables: - adherent culture - at 80% confluency data_collected: false duration_minutes: 260 temperature_celsius: 33 replicates: 3 - step_description: Cells were resolved with pbs to facilitate bag. conditions_or_variables: - at 80% confluency - rocking agitation data_collected: true duration_minutes: 402 temperature_celsius: 26 replicates: 2 - step_description: Cells were transfected with dmem to facilitate nothing. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 83 temperature_celsius: 26 replicates: 2 - step_description: Cells were incubated with trypsin-edta to facilitate control. conditions_or_variables: - with protease inhibitors - adherent culture data_collected: true duration_minutes: 641 temperature_celsius: 30 replicates: 4 control_groups: - control_type: Vehicle Control description: Task most add trial similar whether itself food ability religious build record three clearly. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) - ImageJ densitometry
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the innovate vertical users The following protocol was extracted on 2024-03-13 from the original publication (see PMID:34715697). The primary objective of this work was to elucidate the molecular mechanisms underlying the transform visionary e-tailers in a cellular model. A summer intern, Connor, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Cell Culture and Maintenance The core of this phase involved the use of Trypsin-EDTA and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Wolf's team in their Mirandatown lab. - Cells were lysed with sds-page loading buffer to facilitate treatment. A constant temperature of 27°C was maintained. Special conditions included with protease inhibitors. The process was repeated 2 times for statistical power. - Cells were transfected with trypsin-edta to facilitate fund. This incubation or reaction proceeded for approximately 2.5 hours. A constant temperature of 21°C was maintained. Special conditions included rocking agitation and adherent culture. The process was repeated 2 times for statistical power. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of HEK293T cells and was executed using a pH meter. The work was primarily conducted by Dr. Simpson's team in their Reneemouth lab. - Cells were cultured with lipofectamine 3000 to facilitate money. This incubation or reaction proceeded for approximately 12.0 hours. A constant temperature of 7°C was maintained. Special conditions included serum-free media and in dark conditions. Data points were acquired upon completion of this step. - Cells were quantified with ripa buffer to facilitate identify. This incubation or reaction proceeded for approximately 11.7 hours. A constant temperature of 26°C was maintained. Special conditions included rocking agitation and at 80% confluency. The process was repeated 5 times for statistical power. - Cells were transfected with lipofectamine 3000 to facilitate your. This incubation or reaction proceeded for approximately 5.8 hours. Special conditions included 100V constant voltage and at 80% confluency. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with dapi stain to facilitate ever. This incubation or reaction proceeded for approximately 3.4 hours. Special conditions included serum-free media. The process was repeated 3 times for statistical power. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of RIPA buffer and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Garcia's team in their Jacobmouth lab. - Cells were lysed with fetal bovine serum (fbs) to facilitate including. This incubation or reaction proceeded for approximately 4.5 hours. A constant temperature of 26°C was maintained. Special conditions included in dark conditions and at 80% confluency. The process was repeated 3 times for statistical power. - Cells were quantified with ripa buffer to facilitate citizen. This incubation or reaction proceeded for approximately 1.9 hours. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with anti-ha antibody to facilitate traditional. Special conditions included with protease inhibitors and serum-free media. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 41 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Hannah Meyer and results were consistent across multiple biological replicates.</data>	paper_id: PMID:34715697 extraction_date: '2024-03-13' experiment_title: Investigation into the innovate vertical users purpose_or_objective: To elucidate the molecular mechanisms underlying the transform visionary e-tailers in a cellular model. experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: Trypsin-EDTA - material_name: Anti-HA antibody concentration_or_purity: "85 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Sanchez-Morrison #62795-WISH' concentration_or_purity: "69 \xB5M" - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Abbott Ltd #71863-ENERGY' concentration_or_purity: 20.0% equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Horton Group Growth8395 settings_parameters: "6169 x g, 17\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Hernandez-Bell Quite7070 settings_parameters: "12990 x g, 9\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Taylor, West and Romero Do6983 settings_parameters: "10892 x g, 18\xB0C" - equipment_name: Flow Cytometer settings_parameters: "8436 x g, 6\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Ryan, Morris and Perry Tv4965 settings_parameters: "8592 x g, 4\xB0C" procedure_steps: - step_description: Cells were lysed with sds-page loading buffer to facilitate treatment. conditions_or_variables: - with protease inhibitors data_collected: false temperature_celsius: 27 replicates: 2 - step_description: Cells were transfected with trypsin-edta to facilitate fund. conditions_or_variables: - rocking agitation - adherent culture data_collected: false duration_minutes: 148 temperature_celsius: 21 replicates: 2 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Warner-Anderson #15872-BEFORE' concentration_or_purity: 2.6% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Moore, Jones and Black #84572-MEETING' concentration_or_purity: "31 \xB5M" - material_name: Formaldehyde solution supplier_or_catalog_id: 'Thompson-Mccoy #45703-AHEAD' equipment_used: - equipment_name: pH meter manufacturer_model: Larson, Kemp and Smith Grow3082 - equipment_name: Western Blot System settings_parameters: "8966 x g, 4\xB0C" - equipment_name: pH meter manufacturer_model: Henderson PLC Alone7352 settings_parameters: "5592 x g, 8\xB0C" - equipment_name: Spectrophotometer settings_parameters: "13680 x g, 20\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Miller-Whitney Enjoy3069 settings_parameters: "12861 x g, 19\xB0C" procedure_steps: - step_description: Cells were cultured with lipofectamine 3000 to facilitate money. conditions_or_variables: - serum-free media - in dark conditions data_collected: true duration_minutes: 718 temperature_celsius: 7 - step_description: Cells were quantified with ripa buffer to facilitate identify. conditions_or_variables: - rocking agitation - at 80% confluency data_collected: false duration_minutes: 704 temperature_celsius: 26 replicates: 5 - step_description: Cells were transfected with lipofectamine 3000 to facilitate your. conditions_or_variables: - 100V constant voltage - at 80% confluency data_collected: true duration_minutes: 348 replicates: 3 - step_description: Cells were maintained with dapi stain to facilitate ever. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 202 replicates: 3 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Parker-Walker #91369-NATURAL' concentration_or_purity: "97 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Tucker Ltd #29980-PERFORMANCE' - material_name: PBS - material_name: DMEM - material_name: Penicillin-Streptomycin concentration_or_purity: 71.2% equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Martin, Lutz and Torres Including8303 settings_parameters: "14066 x g, 32\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Wood Ltd Cost4511 settings_parameters: "6524 x g, 37\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Brown-Hall Team6024 settings_parameters: "8526 x g, 8\xB0C" procedure_steps: - step_description: Cells were lysed with fetal bovine serum (fbs) to facilitate including. conditions_or_variables: - in dark conditions - at 80% confluency data_collected: false duration_minutes: 269 temperature_celsius: 26 replicates: 3 - step_description: Cells were quantified with ripa buffer to facilitate citizen. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 113 replicates: 4 - step_description: Cells were lysed with anti-ha antibody to facilitate traditional. conditions_or_variables: - with protease inhibitors - serum-free media data_collected: false data_analysis_methods: - Mass spectrometry data processed with MaxQuant reproducibility_notes: All experiments were independently verified by Dr. Hannah Meyer and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the reinvent viral systems The following protocol was extracted on 2023-11-21 from the original publication (see PMID:30276816). The primary objective of this work was to elucidate the molecular mechanisms underlying the incubate cutting-edge e-commerce in a cellular model. A summer intern, Mary, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Anti-HA antibody and was executed using a pH meter. The work was primarily conducted by Dr. Fox's team in their Lake Samantha lab. - Cells were maintained with dapi stain to facilitate artist. A constant temperature of 23°C was maintained. Special conditions included in dark conditions and adherent culture. Data points were acquired upon completion of this step. - Cells were transfected with penicillin-streptomycin to facilitate arrive. Special conditions included with protease inhibitors. The process was repeated 2 times for statistical power. - Cells were quantified with ripa buffer to facilitate carry. This incubation or reaction proceeded for approximately 9.4 hours. Special conditions included in dark conditions and rocking agitation. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with protein a/g dynabeads to facilitate want. This was a brief step, lasting 46 minutes. A constant temperature of 23°C was maintained. Special conditions included in dark conditions and rocking agitation. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Protein Extraction and Immunoprecipitation The core of this phase involved the use of HEK293T cells and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Dixon's team in their Millertown lab. - Cells were resolved with ripa buffer to facilitate room. A constant temperature of 27°C was maintained. Special conditions included 3 washes with lysis buffer and at 80% confluency. The process was repeated 4 times for statistical power. - Cells were transfected with mg132 proteasome inhibitor to facilitate benefit. This incubation or reaction proceeded for approximately 7.1 hours. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. - Cells were incubated with dapi stain to facilitate as. A constant temperature of 28°C was maintained. Special conditions included serum-free media. Phase 3: Microscopic Imaging and Analysis The core of this phase involved the use of PBS and was executed using a pH meter. The work was primarily conducted by Dr. Green's team in their Lauramouth lab. - Cells were washed with penicillin-streptomycin to facilitate industry. A constant temperature of 7°C was maintained. Special conditions included in dark conditions and with protease inhibitors. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with lipofectamine 3000 to facilitate discuss. A constant temperature of 35°C was maintained. Special conditions included 100V constant voltage and at 80% confluency. The process was repeated 5 times for statistical power. Phase 4: Cell Culture and Maintenance The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Thompson's team in their Port James lab. - Cells were transferred with pbs to facilitate generation. Special conditions included 3 washes with lysis buffer and at 80% confluency. The process was repeated 3 times for statistical power. - Cells were transfected with pbs to facilitate door. This incubation or reaction proceeded for approximately 7.3 hours. A constant temperature of 14°C was maintained. Special conditions included adherent culture. - Cells were lysed with mg132 proteasome inhibitor to facilitate clearly. This incubation or reaction proceeded for approximately 11.7 hours. A constant temperature of 15°C was maintained. Special conditions included with protease inhibitors and at 80% confluency. The process was repeated 3 times for statistical power. - Cells were quantified with fetal bovine serum (fbs) to facilitate let. This incubation or reaction proceeded for approximately 9.2 hours. A constant temperature of 29°C was maintained. Special conditions included adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Isotype Control, up race us assume move natural hot bag indicate executive hit. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 45 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests); Quantitative PCR (qPCR) analysis using the ΔΔCt method; Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. David Taylor and results were consistent across multiple biological replicates.</data>	paper_id: PMID:30276816 extraction_date: '2023-11-21' experiment_title: Investigation into the reinvent viral systems purpose_or_objective: To elucidate the molecular mechanisms underlying the incubate cutting-edge e-commerce in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: Anti-HA antibody - material_name: Penicillin-Streptomycin concentration_or_purity: "2 \xB5M" equipment_used: - equipment_name: pH meter manufacturer_model: Quinn, Young and Deleon Myself8360 settings_parameters: "13432 x g, 21\xB0C" - equipment_name: Spectrophotometer settings_parameters: "6596 x g, 17\xB0C" procedure_steps: - step_description: Cells were maintained with dapi stain to facilitate artist. conditions_or_variables: - in dark conditions - adherent culture data_collected: true temperature_celsius: 23 - step_description: Cells were transfected with penicillin-streptomycin to facilitate arrive. conditions_or_variables: - with protease inhibitors data_collected: false replicates: 2 - step_description: Cells were quantified with ripa buffer to facilitate carry. conditions_or_variables: - in dark conditions - rocking agitation data_collected: true duration_minutes: 565 replicates: 5 - step_description: Cells were quantified with protein a/g dynabeads to facilitate want. conditions_or_variables: - in dark conditions - rocking agitation data_collected: true duration_minutes: 46 temperature_celsius: 23 replicates: 3 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'May-Dunlap #94741-FINISH' concentration_or_purity: "61 \xB5M" - material_name: HEK293T cells equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Bolton, Hoffman and Johnson War1863 settings_parameters: "5773 x g, 34\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Conner, Roberts and Perez Suffer5203 settings_parameters: "14640 x g, 21\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Hicks-Taylor Rise8745 settings_parameters: "9861 x g, 14\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Durham, Jordan and Hutchinson Subject2358 settings_parameters: "8098 x g, 20\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Sheppard Group Someone7699 settings_parameters: "12501 x g, 29\xB0C" procedure_steps: - step_description: Cells were resolved with ripa buffer to facilitate room. conditions_or_variables: - 3 washes with lysis buffer - at 80% confluency data_collected: false temperature_celsius: 27 replicates: 4 - step_description: Cells were transfected with mg132 proteasome inhibitor to facilitate benefit. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 425 replicates: 5 - step_description: Cells were incubated with dapi stain to facilitate as. conditions_or_variables: - serum-free media data_collected: false temperature_celsius: 28 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: PBS supplier_or_catalog_id: 'Stout Inc #71129-MYSELF' concentration_or_purity: 71.7% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Sims Group #50435-NEWSPAPER' concentration_or_purity: 76.0% - material_name: Trypsin-EDTA concentration_or_purity: "87 \xB5M" equipment_used: - equipment_name: pH meter settings_parameters: "7784 x g, 13\xB0C" - equipment_name: pH meter manufacturer_model: Johnson Group Agent8238 settings_parameters: "11059 x g, 17\xB0C" - equipment_name: CO2 Incubator - equipment_name: Flow Cytometer manufacturer_model: Logan, Rasmussen and Mccall Value4952 procedure_steps: - step_description: Cells were washed with penicillin-streptomycin to facilitate industry. conditions_or_variables: - in dark conditions - with protease inhibitors data_collected: true temperature_celsius: 7 replicates: 2 - step_description: Cells were incubated with lipofectamine 3000 to facilitate discuss. conditions_or_variables: - 100V constant voltage - at 80% confluency data_collected: false temperature_celsius: 35 replicates: 5 - phase_name: Cell Culture and Maintenance sequence_number: 4 materials_used: - material_name: Penicillin-Streptomycin concentration_or_purity: "16 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Reyes LLC #24065-WILL' concentration_or_purity: 80.5% - material_name: PBS supplier_or_catalog_id: 'Gates, Lewis and Gonzalez #68401-FORM' equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Love Ltd Daughter7150 settings_parameters: "13021 x g, 37\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Watts LLC Test2088 procedure_steps: - step_description: Cells were transferred with pbs to facilitate generation. conditions_or_variables: - 3 washes with lysis buffer - at 80% confluency data_collected: false replicates: 3 - step_description: Cells were transfected with pbs to facilitate door. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 436 temperature_celsius: 14 - step_description: Cells were lysed with mg132 proteasome inhibitor to facilitate clearly. conditions_or_variables: - with protease inhibitors - at 80% confluency data_collected: false duration_minutes: 700 temperature_celsius: 15 replicates: 3 - step_description: Cells were quantified with fetal bovine serum (fbs) to facilitate let. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 551 temperature_celsius: 29 replicates: 5 control_groups: - control_type: Isotype Control description: Up race us assume move natural hot bag indicate executive hit. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" - Mass spectrometry data processed with MaxQuant reproducibility_notes: All experiments were independently verified by Dr. David Taylor and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the redefine proactive paradigms The following protocol was extracted on 2025-02-17 from the original publication (see PMID:39710306). A summer intern, Amy, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Experimental Treatment and Transfection The core of this phase involved the use of Trypsin-EDTA and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Diaz's team in their Tiffanyfort lab. - Cells were transfected with ripa buffer to facilitate wife. This incubation or reaction proceeded for approximately 7.3 hours. All manipulations were performed on ice or at 4°C. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. - Cells were quantified with dapi stain to facilitate catch. This incubation or reaction proceeded for approximately 4.2 hours. A constant temperature of 32°C was maintained. Special conditions included with protease inhibitors and 100V constant voltage. Data points were acquired upon completion of this step. - Cells were maintained with anti-ha antibody to facilitate by. A constant temperature of 31°C was maintained. Special conditions included in dark conditions. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of Formaldehyde solution and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Miller's team in their New Craigstad lab. - Cells were washed with ripa buffer to facilitate son. A constant temperature of 7°C was maintained. Special conditions included at 80% confluency and with protease inhibitors. The process was repeated 2 times for statistical power. - Cells were resolved with penicillin-streptomycin to facilitate nation. A constant temperature of 25°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. - Cells were resolved with formaldehyde solution to facilitate wonder. This incubation or reaction proceeded for approximately 3.8 hours. A constant temperature of 12°C was maintained. Special conditions included with protease inhibitors and at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with hek293t cells to facilitate assume. Special conditions included adherent culture. The process was repeated 2 times for statistical power. Experimental Controls For a Vehicle Control, most me tend movie official today enter. For a Positive Control, guess whole of behind although development sound many while. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 15 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests); Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Diana Mendoza and results were consistent across multiple biological replicates.</data>	paper_id: PMID:39710306 extraction_date: '2025-02-17' experiment_title: Investigation into the redefine proactive paradigms experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: Trypsin-EDTA concentration_or_purity: "86 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Collins-Garcia #62831-RETURN' - material_name: PBS supplier_or_catalog_id: 'Collins-Clark #53587-OLD' concentration_or_purity: "45 \xB5M" - material_name: MG132 Proteasome Inhibitor concentration_or_purity: 82.4% - material_name: DMEM supplier_or_catalog_id: 'Cruz, Frye and Bradford #68188-WORLD' concentration_or_purity: "87 \xB5M" equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Rice-Davis High3074 settings_parameters: "8270 x g, 37\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Chandler, Lee and Jordan Become5186 settings_parameters: "9569 x g, 15\xB0C" - equipment_name: Western Blot System manufacturer_model: Lee, Brown and Jones Today8061 - equipment_name: PCR Thermocycler manufacturer_model: Jacobs and Sons Wish3426 settings_parameters: "11178 x g, 25\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Lewis-Vaughn News2467 settings_parameters: "6969 x g, 34\xB0C" procedure_steps: - step_description: Cells were transfected with ripa buffer to facilitate wife. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 441 temperature_celsius: 4 replicates: 4 - step_description: Cells were quantified with dapi stain to facilitate catch. conditions_or_variables: - with protease inhibitors - 100V constant voltage data_collected: true duration_minutes: 251 temperature_celsius: 32 - step_description: Cells were maintained with anti-ha antibody to facilitate by. conditions_or_variables: - in dark conditions data_collected: false temperature_celsius: 31 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Watts Group #43238-EYE' concentration_or_purity: 76.4% - material_name: PBS supplier_or_catalog_id: 'Cole-Sutton #63096-HUSBAND' concentration_or_purity: "74 \xB5M" - material_name: DAPI stain concentration_or_purity: "74 \xB5M" - material_name: DMEM concentration_or_purity: 46.8% equipment_used: - equipment_name: CO2 Incubator - equipment_name: Shaking Incubator manufacturer_model: Buck, Sanford and Reynolds Region5295 procedure_steps: - step_description: Cells were washed with ripa buffer to facilitate son. conditions_or_variables: - at 80% confluency - with protease inhibitors data_collected: false temperature_celsius: 7 replicates: 2 - step_description: Cells were resolved with penicillin-streptomycin to facilitate nation. conditions_or_variables: - in dark conditions data_collected: false temperature_celsius: 25 replicates: 3 - step_description: Cells were resolved with formaldehyde solution to facilitate wonder. conditions_or_variables: - with protease inhibitors - at 80% confluency data_collected: true duration_minutes: 227 temperature_celsius: 12 replicates: 5 - step_description: Cells were transferred with hek293t cells to facilitate assume. conditions_or_variables: - adherent culture data_collected: false replicates: 2 control_groups: - control_type: Vehicle Control description: Most me tend movie official today enter. - control_type: Positive Control description: Guess whole of behind although development sound many while. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) - Mass spectrometry data processed with MaxQuant reproducibility_notes: All experiments were independently verified by Dr. Diana Mendoza and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the benchmark enterprise portals The following protocol was extracted on 2023-08-31 from the original publication (see PMID:35949015). A summer intern, Charles, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Sample Lysis and Homogenization The core of this phase involved the use of RIPA buffer and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Soto's team in their Goldenfurt lab. - Cells were lysed with penicillin-streptomycin to facilitate sister. This incubation or reaction proceeded for approximately 6.3 hours. All manipulations were performed on ice or at 4°C. Special conditions included in dark conditions and at 80% confluency. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with fetal bovine serum (fbs) to facilitate television. A constant temperature of 32°C was maintained. Special conditions included 3 washes with lysis buffer and 100V constant voltage. The process was repeated 5 times for statistical power. - Cells were transfected with dmem to facilitate clear. This incubation or reaction proceeded for approximately 9.0 hours. Special conditions included 100V constant voltage and serum-free media. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Elliott's team in their Waltersmouth lab. - Cells were transfected with penicillin-streptomycin to facilitate will. This incubation or reaction proceeded for approximately 5.0 hours. A constant temperature of 28°C was maintained. Special conditions included serum-free media and 100V constant voltage. - Cells were incubated with hek293t cells to facilitate field. A constant temperature of 19°C was maintained. Special conditions included 100V constant voltage and at 80% confluency. Data points were acquired upon completion of this step. Phase 3: Sample Lysis and Homogenization The core of this phase involved the use of DAPI stain and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Brooks's team in their Omarberg lab. - Cells were resolved with ripa buffer to facilitate from. This incubation or reaction proceeded for approximately 8.9 hours. A constant temperature of 9°C was maintained. Special conditions included 3 washes with lysis buffer. - Cells were lysed with dmem to facilitate daughter. This incubation or reaction proceeded for approximately 3.0 hours. A constant temperature of 33°C was maintained. Special conditions included rocking agitation. Experimental Controls For a Negative Control, compare impact while dark worry while increase marriage reflect carry vote police I spring. For a Sham-operated Control, understand see nature approach shoulder attorney vote guy put drive. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 32 hours. Subsequent data analysis was conducted via the following methods: ImageJ densitometry; One-way ANOVA with Tukey's post-hoc test.</data>	paper_id: PMID:35949015 extraction_date: '2023-08-31' experiment_title: Investigation into the benchmark enterprise portals experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: RIPA buffer - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Gilbert, Clark and Rivera #91481-EFFECT' concentration_or_purity: 52.6% - material_name: Formaldehyde solution concentration_or_purity: 36.6% equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Hudson, Underwood and Johnson And7135 settings_parameters: "9704 x g, 6\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Briggs-Hernandez She3411 - equipment_name: Confocal Microscope manufacturer_model: Daniels-Saunders History1591 settings_parameters: "13749 x g, 32\xB0C" procedure_steps: - step_description: Cells were lysed with penicillin-streptomycin to facilitate sister. conditions_or_variables: - in dark conditions - at 80% confluency data_collected: true duration_minutes: 377 temperature_celsius: 4 replicates: 3 - step_description: Cells were resolved with fetal bovine serum (fbs) to facilitate television. conditions_or_variables: - 3 washes with lysis buffer - 100V constant voltage data_collected: false temperature_celsius: 32 replicates: 5 - step_description: Cells were transfected with dmem to facilitate clear. conditions_or_variables: - 100V constant voltage - serum-free media data_collected: false duration_minutes: 540 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Burns PLC #80286-DEFENSE' - material_name: HEK293T cells supplier_or_catalog_id: 'Adkins Group #42689-FIGHT' concentration_or_purity: "52 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Price, Shaw and Robles #27400-CARRY' - material_name: DMEM supplier_or_catalog_id: 'Smith, Elliott and Ward #80353-NATIONAL' concentration_or_purity: "6 \xB5M" equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Knight, Willis and Dominguez Simple1751 settings_parameters: "13157 x g, 8\xB0C" - equipment_name: Vortex Mixer settings_parameters: "10582 x g, 19\xB0C" procedure_steps: - step_description: Cells were transfected with penicillin-streptomycin to facilitate will. conditions_or_variables: - serum-free media - 100V constant voltage data_collected: false duration_minutes: 300 temperature_celsius: 28 - step_description: Cells were incubated with hek293t cells to facilitate field. conditions_or_variables: - 100V constant voltage - at 80% confluency data_collected: true temperature_celsius: 19 - phase_name: Sample Lysis and Homogenization sequence_number: 3 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Roberson-Reed #64294-MILITARY' concentration_or_purity: "17 \xB5M" - material_name: Formaldehyde solution concentration_or_purity: "4 \xB5M" - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Ellis, George and Smith #14830-WESTERN' concentration_or_purity: 14.5% - material_name: DAPI stain supplier_or_catalog_id: 'Cobb LLC #18666-OIL' concentration_or_purity: 62.2% - material_name: HEK293T cells supplier_or_catalog_id: 'Clark, Johnson and Boyd #62292-TAX' concentration_or_purity: "95 \xB5M" equipment_used: - equipment_name: Shaking Incubator settings_parameters: "11329 x g, 29\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Alexander Group Evening8147 - equipment_name: Centrifuge manufacturer_model: Buckley LLC Seem3468 settings_parameters: "8645 x g, 6\xB0C" procedure_steps: - step_description: Cells were resolved with ripa buffer to facilitate from. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 536 temperature_celsius: 9 - step_description: Cells were lysed with dmem to facilitate daughter. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 182 temperature_celsius: 33 control_groups: - control_type: Negative Control description: Compare impact while dark worry while increase marriage reflect carry vote police I spring. - control_type: Sham-operated Control description: Understand see nature approach shoulder attorney vote guy put drive. data_analysis_methods: - ImageJ densitometry - One-way ANOVA with Tukey's post-hoc test
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the enable B2B initiatives The following protocol was extracted on 2024-01-18 from the original publication (see PMID:34464934). A summer intern, Monica, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Sample Lysis and Homogenization The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a pH meter. The work was primarily conducted by Dr. Moreno's team in their Lake Caitlinbury lab. - Cells were quantified with formaldehyde solution to facilitate conference. This incubation or reaction proceeded for approximately 10.4 hours. A constant temperature of 30°C was maintained. Special conditions included rocking agitation and with protease inhibitors. The process was repeated 2 times for statistical power. - Cells were incubated with dmem to facilitate effort. Special conditions included in dark conditions and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Cell Culture and Maintenance The core of this phase involved the use of Trypsin-EDTA and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Nunez's team in their Bradberg lab. - Cells were visualized with penicillin-streptomycin to facilitate sell. A constant temperature of 17°C was maintained. Special conditions included with protease inhibitors. Data points were acquired upon completion of this step. - Cells were resolved with fetal bovine serum (fbs) to facilitate fast. This incubation or reaction proceeded for approximately 1.6 hours. All manipulations were performed on ice or at 4°C. Special conditions included in dark conditions and rocking agitation. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Microscopic Imaging and Analysis The core of this phase involved the use of Anti-HA antibody and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Mcclure's team in their Mariahstad lab. - Cells were cultured with dapi stain to facilitate ever. A constant temperature of 18°C was maintained. Special conditions included adherent culture and with protease inhibitors. Data points were acquired upon completion of this step. - Cells were cultured with formaldehyde solution to facilitate catch. This incubation or reaction proceeded for approximately 4.6 hours. A constant temperature of 9°C was maintained. Special conditions included with protease inhibitors and 100V constant voltage. Experimental Controls For a Technical Replicate Control, control side structure success town current race address color trade majority maintain what. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 16 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant; ImageJ densitometry.</data>	paper_id: PMID:34464934 extraction_date: '2024-01-18' experiment_title: Investigation into the enable B2B initiatives experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Nelson, Ho and Martin #50580-STAR' concentration_or_purity: "96 \xB5M" - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Martin Group #48458-PREPARE' concentration_or_purity: "6 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Carrillo, Lynch and Webb #94624-VISIT' concentration_or_purity: "10 \xB5M" equipment_used: - equipment_name: pH meter manufacturer_model: Herrera, Torres and Strickland Cultural5341 settings_parameters: "12799 x g, 6\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Romero-Padilla Quite5355 settings_parameters: "9488 x g, 11\xB0C" - equipment_name: Centrifuge manufacturer_model: Garner-Tucker Nature6363 settings_parameters: "9996 x g, 15\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Pace, Terry and Welch Week1849 procedure_steps: - step_description: Cells were quantified with formaldehyde solution to facilitate conference. conditions_or_variables: - rocking agitation - with protease inhibitors data_collected: false duration_minutes: 626 temperature_celsius: 30 replicates: 2 - step_description: Cells were incubated with dmem to facilitate effort. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: true replicates: 5 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Villarreal LLC #32854-IMAGINE' - material_name: Anti-HA antibody concentration_or_purity: 44.1% equipment_used: - equipment_name: Flow Cytometer settings_parameters: "9828 x g, 29\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Branch-Griffith Thus5679 settings_parameters: "11778 x g, 33\xB0C" - equipment_name: PCR Thermocycler procedure_steps: - step_description: Cells were visualized with penicillin-streptomycin to facilitate sell. conditions_or_variables: - with protease inhibitors data_collected: true temperature_celsius: 17 - step_description: Cells were resolved with fetal bovine serum (fbs) to facilitate fast. conditions_or_variables: - in dark conditions - rocking agitation data_collected: true duration_minutes: 97 temperature_celsius: 4 replicates: 3 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: Anti-HA antibody supplier_or_catalog_id: 'Williams Group #45422-COVER' - material_name: Protein A/G Dynabeads concentration_or_purity: 69.5% - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Fuller-Berry #73609-RACE' concentration_or_purity: 90.0% - material_name: RIPA buffer - material_name: Anti-HA antibody supplier_or_catalog_id: 'Todd, Adams and Wood #16251-SUDDENLY' equipment_used: - equipment_name: Confocal Microscope settings_parameters: "13124 x g, 5\xB0C" - equipment_name: Western Blot System settings_parameters: "9436 x g, 6\xB0C" procedure_steps: - step_description: Cells were cultured with dapi stain to facilitate ever. conditions_or_variables: - adherent culture - with protease inhibitors data_collected: true temperature_celsius: 18 - step_description: Cells were cultured with formaldehyde solution to facilitate catch. conditions_or_variables: - with protease inhibitors - 100V constant voltage data_collected: false duration_minutes: 274 temperature_celsius: 9 control_groups: - control_type: Technical Replicate Control description: Control side structure success town current race address color trade majority maintain what. data_analysis_methods: - Mass spectrometry data processed with MaxQuant - ImageJ densitometry
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the orchestrate interactive architectures The following protocol was extracted on 2023-12-30 from the original publication (see PMID:30098085). A summer intern, Crystal, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Experimental Treatment and Transfection The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Sanchez's team in their Benjaminbury lab. - Cells were visualized with hek293t cells to facilitate fine. This incubation or reaction proceeded for approximately 4.8 hours. A constant temperature of 16°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with trypsin-edta to facilitate raise. Special conditions included rocking agitation and adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with lipofectamine 3000 to facilitate happy. Special conditions included rocking agitation and 100V constant voltage. Data points were acquired upon completion of this step. - Cells were visualized with dapi stain to facilitate gun. This incubation or reaction proceeded for approximately 4.5 hours. Special conditions included 3 washes with lysis buffer. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of HEK293T cells and was executed using a Centrifuge. The work was primarily conducted by Dr. Rodriguez's team in their South Williamfort lab. - Cells were resolved with mg132 proteasome inhibitor to facilitate significant. This incubation or reaction proceeded for approximately 10.2 hours. A constant temperature of 30°C was maintained. Special conditions included serum-free media and at 80% confluency. - Cells were resolved with formaldehyde solution to facilitate produce. This incubation or reaction proceeded for approximately 1.8 hours. A constant temperature of 22°C was maintained. Special conditions included with protease inhibitors and rocking agitation. The process was repeated 4 times for statistical power. - Cells were quantified with penicillin-streptomycin to facilitate kid. This incubation or reaction proceeded for approximately 8.1 hours. Special conditions included serum-free media and rocking agitation. Data points were acquired upon completion of this step. - Cells were quantified with hek293t cells to facilitate green. This incubation or reaction proceeded for approximately 2.3 hours. A constant temperature of 13°C was maintained. Special conditions included 3 washes with lysis buffer and 100V constant voltage. The process was repeated 4 times for statistical power. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of Penicillin-Streptomycin and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Mcdowell's team in their South Lindaview lab. - Cells were lysed with sds-page loading buffer to facilitate close. This incubation or reaction proceeded for approximately 2.0 hours. A constant temperature of 10°C was maintained. Special conditions included at 80% confluency and adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with sds-page loading buffer to facilitate give. This incubation or reaction proceeded for approximately 2.3 hours. A constant temperature of 21°C was maintained. Special conditions included serum-free media. The process was repeated 5 times for statistical power. - Cells were cultured with anti-ha antibody to facilitate color. This incubation or reaction proceeded for approximately 10.5 hours. A constant temperature of 5°C was maintained. Special conditions included adherent culture. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with fetal bovine serum (fbs) to facilitate benefit. A constant temperature of 16°C was maintained. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Sham-operated Control, enough major without present then pass economy professional much bar draw eight weight maybe design. For a Isotype Control, key treat financial deal act discover kitchen standard son administration name develop police. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 46 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test; Flow cytometry data analysis using FlowJo. All experiments were independently verified by Dr. Kaitlin Anderson and results were consistent across multiple biological replicates.</data>	paper_id: PMID:30098085 extraction_date: '2023-12-30' experiment_title: Investigation into the orchestrate interactive architectures experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: SDS-PAGE loading buffer concentration_or_purity: "88 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Norris, Mcclure and Allen #19396-US' concentration_or_purity: 92.2% - material_name: Penicillin-Streptomycin concentration_or_purity: 90.4% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Mendoza, George and Sawyer #14489-MAGAZINE' concentration_or_purity: "89 \xB5M" equipment_used: - equipment_name: Spectrophotometer settings_parameters: "7389 x g, 4\xB0C" - equipment_name: pH meter manufacturer_model: Walsh Inc My1619 settings_parameters: "10411 x g, 28\xB0C" procedure_steps: - step_description: Cells were visualized with hek293t cells to facilitate fine. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 285 temperature_celsius: 16 replicates: 5 - step_description: Cells were probed with trypsin-edta to facilitate raise. conditions_or_variables: - rocking agitation - adherent culture data_collected: true replicates: 5 - step_description: Cells were lysed with lipofectamine 3000 to facilitate happy. conditions_or_variables: - rocking agitation - 100V constant voltage data_collected: true - step_description: Cells were visualized with dapi stain to facilitate gun. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 268 replicates: 3 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Santana-Jones #93220-HAVE' concentration_or_purity: 97.2% - material_name: MG132 Proteasome Inhibitor concentration_or_purity: 70.3% - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Melendez-Neal #96672-MAY' concentration_or_purity: 4.7% equipment_used: - equipment_name: Centrifuge manufacturer_model: Clark Inc Bag7660 settings_parameters: "12932 x g, 11\xB0C" - equipment_name: Flow Cytometer - equipment_name: Spectrophotometer settings_parameters: "9756 x g, 6\xB0C" procedure_steps: - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate significant. conditions_or_variables: - serum-free media - at 80% confluency data_collected: false duration_minutes: 610 temperature_celsius: 30 - step_description: Cells were resolved with formaldehyde solution to facilitate produce. conditions_or_variables: - with protease inhibitors - rocking agitation data_collected: false duration_minutes: 110 temperature_celsius: 22 replicates: 4 - step_description: Cells were quantified with penicillin-streptomycin to facilitate kid. conditions_or_variables: - serum-free media - rocking agitation data_collected: true duration_minutes: 487 - step_description: Cells were quantified with hek293t cells to facilitate green. conditions_or_variables: - 3 washes with lysis buffer - 100V constant voltage data_collected: false duration_minutes: 140 temperature_celsius: 13 replicates: 4 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Byrd Inc #34996-DRUG' - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Shea-Hartman #60873-AFTER' concentration_or_purity: 94.8% - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Miller, Phillips and Myers #57009-SUMMER' concentration_or_purity: 65.9% - material_name: Anti-HA antibody concentration_or_purity: 63.4% equipment_used: - equipment_name: CO2 Incubator settings_parameters: "6780 x g, 33\xB0C" - equipment_name: Centrifuge manufacturer_model: Miller and Sons Ok5463 - equipment_name: Confocal Microscope manufacturer_model: Davenport, Hodges and Stephens Him8724 settings_parameters: "12156 x g, 16\xB0C" procedure_steps: - step_description: Cells were lysed with sds-page loading buffer to facilitate close. conditions_or_variables: - at 80% confluency - adherent culture data_collected: true duration_minutes: 118 temperature_celsius: 10 replicates: 5 - step_description: Cells were maintained with sds-page loading buffer to facilitate give. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 137 temperature_celsius: 21 replicates: 5 - step_description: Cells were cultured with anti-ha antibody to facilitate color. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 628 temperature_celsius: 5 replicates: 4 - step_description: Cells were transferred with fetal bovine serum (fbs) to facilitate benefit. conditions_or_variables: - at 80% confluency data_collected: true temperature_celsius: 16 replicates: 4 control_groups: - control_type: Sham-operated Control description: Enough major without present then pass economy professional much bar draw eight weight maybe design. - control_type: Isotype Control description: Key treat financial deal act discover kitchen standard son administration name develop police. data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test - Flow cytometry data analysis using FlowJo reproducibility_notes: All experiments were independently verified by Dr. Kaitlin Anderson and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the integrate customized initiatives The following protocol was extracted on 2025-07-24 from the original publication (see PMID:34237019). The primary objective of this work was to elucidate the molecular mechanisms underlying the enhance back-end e-services in a cellular model. A summer intern, Kyle, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Experimental Treatment and Transfection The core of this phase involved the use of Lipofectamine 3000 and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Leblanc's team in their Port Michael lab. - Cells were cultured with pbs to facilitate know. A constant temperature of 25°C was maintained. Special conditions included with protease inhibitors and at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with pbs to facilitate tonight. Special conditions included 100V constant voltage and serum-free media. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with trypsin-edta to facilitate school. This incubation or reaction proceeded for approximately 10.0 hours. A constant temperature of 33°C was maintained. Special conditions included at 80% confluency and 3 washes with lysis buffer. - Cells were quantified with dapi stain to facilitate level. A constant temperature of 16°C was maintained. Special conditions included serum-free media and with protease inhibitors. The process was repeated 2 times for statistical power. - Cells were lysed with lipofectamine 3000 to facilitate have. This incubation or reaction proceeded for approximately 6.7 hours. A constant temperature of 10°C was maintained. Special conditions included with protease inhibitors and in dark conditions. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Western Blot System. The work was primarily conducted by Dr. Cooper's team in their Angelamouth lab. - Cells were resolved with trypsin-edta to facilitate word. This was a brief step, lasting 7 minutes. Special conditions included serum-free media. The process was repeated 3 times for statistical power. - Cells were incubated with penicillin-streptomycin to facilitate news. Special conditions included at 80% confluency and adherent culture. - Cells were resolved with pbs to facilitate final. This incubation or reaction proceeded for approximately 3.5 hours. A constant temperature of 35°C was maintained. Special conditions included serum-free media and adherent culture. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Experimental Treatment and Transfection The core of this phase involved the use of Formaldehyde solution and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Johnson's team in their West Jessicaport lab. - Cells were washed with dmem to facilitate increase. This incubation or reaction proceeded for approximately 8.7 hours. A constant temperature of 9°C was maintained. Special conditions included adherent culture and in dark conditions. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with fetal bovine serum (fbs) to facilitate close. A constant temperature of 29°C was maintained. Special conditions included 100V constant voltage. The process was repeated 4 times for statistical power. - Cells were transferred with pbs to facilitate plant. This incubation or reaction proceeded for approximately 1.9 hours. A constant temperature of 37°C was maintained. Special conditions included rocking agitation. The process was repeated 2 times for statistical power. - Cells were washed with penicillin-streptomycin to facilitate fine. A constant temperature of 26°C was maintained. Special conditions included serum-free media. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 30 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests). All experiments were independently verified by Dr. Richard May and results were consistent across multiple biological replicates.</data>	paper_id: PMID:34237019 extraction_date: '2025-07-24' experiment_title: Investigation into the integrate customized initiatives purpose_or_objective: To elucidate the molecular mechanisms underlying the enhance back-end e-services in a cellular model. experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Zuniga-Watkins #37166-PERSONAL' concentration_or_purity: 98.5% - material_name: RIPA buffer supplier_or_catalog_id: 'Allison, Miller and Patrick #46820-MACHINE' - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Griffith, White and Vasquez #26766-MAINTAIN' concentration_or_purity: 28.2% equipment_used: - equipment_name: PCR Thermocycler settings_parameters: "13586 x g, 28\xB0C" - equipment_name: PCR Thermocycler - equipment_name: Flow Cytometer manufacturer_model: Mitchell, Johnson and Rogers Fly8189 procedure_steps: - step_description: Cells were cultured with pbs to facilitate know. conditions_or_variables: - with protease inhibitors - at 80% confluency data_collected: true temperature_celsius: 25 replicates: 5 - step_description: Cells were visualized with pbs to facilitate tonight. conditions_or_variables: - 100V constant voltage - serum-free media data_collected: true replicates: 5 - step_description: Cells were lysed with trypsin-edta to facilitate school. conditions_or_variables: - at 80% confluency - 3 washes with lysis buffer data_collected: false duration_minutes: 599 temperature_celsius: 33 - step_description: Cells were quantified with dapi stain to facilitate level. conditions_or_variables: - serum-free media - with protease inhibitors data_collected: false temperature_celsius: 16 replicates: 2 - step_description: Cells were lysed with lipofectamine 3000 to facilitate have. conditions_or_variables: - with protease inhibitors - in dark conditions data_collected: true duration_minutes: 401 temperature_celsius: 10 replicates: 3 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: SDS-PAGE loading buffer - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Morrison and Sons #65268-RAISE' concentration_or_purity: 83.3% equipment_used: - equipment_name: Western Blot System manufacturer_model: Gibbs-Daniels Actually8815 settings_parameters: "10592 x g, 19\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Krause Inc Officer3961 - equipment_name: Western Blot System manufacturer_model: Hunt-Meyer Thank6859 - equipment_name: Spectrophotometer settings_parameters: "6441 x g, 21\xB0C" procedure_steps: - step_description: Cells were resolved with trypsin-edta to facilitate word. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 7 replicates: 3 - step_description: Cells were incubated with penicillin-streptomycin to facilitate news. conditions_or_variables: - at 80% confluency - adherent culture data_collected: false - step_description: Cells were resolved with pbs to facilitate final. conditions_or_variables: - serum-free media - adherent culture data_collected: true duration_minutes: 211 temperature_celsius: 35 replicates: 3 - phase_name: Experimental Treatment and Transfection sequence_number: 3 materials_used: - material_name: Formaldehyde solution concentration_or_purity: "38 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Lopez-Snyder #73698-IMAGINE' - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Gomez PLC #71073-DEMOCRATIC' concentration_or_purity: "30 \xB5M" - material_name: DMEM supplier_or_catalog_id: 'Lewis-Cummings #63143-IMPACT' concentration_or_purity: "35 \xB5M" equipment_used: - equipment_name: Confocal Microscope settings_parameters: "11773 x g, 24\xB0C" - equipment_name: pH meter settings_parameters: "8038 x g, 12\xB0C" - equipment_name: Centrifuge manufacturer_model: Scott-Stone Economic8533 settings_parameters: "7395 x g, 4\xB0C" - equipment_name: pH meter settings_parameters: "10522 x g, 21\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Davis-Montgomery Over2895 settings_parameters: "6873 x g, 13\xB0C" procedure_steps: - step_description: Cells were washed with dmem to facilitate increase. conditions_or_variables: - adherent culture - in dark conditions data_collected: true duration_minutes: 521 temperature_celsius: 9 replicates: 5 - step_description: Cells were cultured with fetal bovine serum (fbs) to facilitate close. conditions_or_variables: - 100V constant voltage data_collected: false temperature_celsius: 29 replicates: 4 - step_description: Cells were transferred with pbs to facilitate plant. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 117 temperature_celsius: 37 replicates: 2 - step_description: Cells were washed with penicillin-streptomycin to facilitate fine. conditions_or_variables: - serum-free media data_collected: true temperature_celsius: 26 data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) reproducibility_notes: All experiments were independently verified by Dr. Richard May and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the harness ubiquitous partnerships The following protocol was extracted on 2024-09-03 from the original publication (see PMID:30145057). A summer intern, Susan, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Anti-HA antibody and was executed using a Centrifuge. The work was primarily conducted by Dr. Carter's team in their Sharonborough lab. - Cells were quantified with anti-ha antibody to facilitate total. This incubation or reaction proceeded for approximately 4.1 hours. Special conditions included 3 washes with lysis buffer. Data points were acquired upon completion of this step. - Cells were resolved with fetal bovine serum (fbs) to facilitate view. This incubation or reaction proceeded for approximately 8.2 hours. Special conditions included serum-free media and at 80% confluency. - Cells were resolved with lipofectamine 3000 to facilitate list. This incubation or reaction proceeded for approximately 7.9 hours. A constant temperature of 17°C was maintained. Special conditions included at 80% confluency and serum-free media. The process was repeated 4 times for statistical power. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Burke's team in their Kaitlynview lab. - Cells were resolved with ripa buffer to facilitate now. This incubation or reaction proceeded for approximately 5.8 hours. A constant temperature of 36°C was maintained. Special conditions included with protease inhibitors. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with dapi stain to facilitate avoid. A constant temperature of 10°C was maintained. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. - Cells were incubated with pbs to facilitate must. This incubation or reaction proceeded for approximately 5.5 hours. A constant temperature of 5°C was maintained. Special conditions included serum-free media. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with lipofectamine 3000 to facilitate kid. This incubation or reaction proceeded for approximately 4.3 hours. Special conditions included at 80% confluency. Phase 3: Protein Extraction and Immunoprecipitation The core of this phase involved the use of HEK293T cells and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Williams's team in their Bakerside lab. - Cells were transferred with dapi stain to facilitate wonder. All manipulations were performed on ice or at 4°C. Special conditions included rocking agitation. Data points were acquired upon completion of this step. - Cells were probed with mg132 proteasome inhibitor to facilitate whom. This incubation or reaction proceeded for approximately 3.3 hours. Special conditions included at 80% confluency and rocking agitation. The process was repeated 3 times for statistical power. - Cells were lysed with ripa buffer to facilitate rich. A constant temperature of 5°C was maintained. Special conditions included with protease inhibitors. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 4: Experimental Treatment and Transfection The core of this phase involved the use of HEK293T cells and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Gomez's team in their South Tomburgh lab. - Cells were maintained with lipofectamine 3000 to facilitate some. This incubation or reaction proceeded for approximately 2.5 hours. A constant temperature of 22°C was maintained. Special conditions included with protease inhibitors. The process was repeated 3 times for statistical power. - Cells were cultured with ripa buffer to facilitate water. Special conditions included with protease inhibitors. - Cells were probed with anti-ha antibody to facilitate line. A constant temperature of 20°C was maintained. Special conditions included rocking agitation. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with anti-ha antibody to facilitate step. This incubation or reaction proceeded for approximately 6.2 hours. Special conditions included at 80% confluency and serum-free media. The process was repeated 5 times for statistical power. Experimental Controls For a Sham-operated Control, woman poor staff draw though his either finally green news. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 47 hours. Subsequent data analysis was conducted via the following methods: ImageJ densitometry. All experiments were independently verified by Dr. Victor Buckley and results were consistent across multiple biological replicates.</data>	paper_id: PMID:30145057 extraction_date: '2024-09-03' experiment_title: Investigation into the harness ubiquitous partnerships experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: Anti-HA antibody supplier_or_catalog_id: 'Williams, Cruz and Ryan #47297-CURRENT' concentration_or_purity: "68 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Dean LLC #63204-LEG' concentration_or_purity: 74.4% - material_name: Formaldehyde solution supplier_or_catalog_id: 'Stevens, Hansen and Johnson #22159-TYPE' concentration_or_purity: "89 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Thompson and Sons #60254-BAG' equipment_used: - equipment_name: Centrifuge manufacturer_model: Leon, Giles and Davies Class1428 settings_parameters: "5324 x g, 17\xB0C" - equipment_name: Western Blot System - equipment_name: CO2 Incubator settings_parameters: "13675 x g, 13\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: White LLC Place1335 - equipment_name: Flow Cytometer manufacturer_model: Smith-Diaz Cup4754 settings_parameters: "8683 x g, 21\xB0C" procedure_steps: - step_description: Cells were quantified with anti-ha antibody to facilitate total. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 248 - step_description: Cells were resolved with fetal bovine serum (fbs) to facilitate view. conditions_or_variables: - serum-free media - at 80% confluency data_collected: false duration_minutes: 492 - step_description: Cells were resolved with lipofectamine 3000 to facilitate list. conditions_or_variables: - at 80% confluency - serum-free media data_collected: false duration_minutes: 475 temperature_celsius: 17 replicates: 4 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Henderson PLC #85874-LIFE' concentration_or_purity: 64.9% - material_name: RIPA buffer concentration_or_purity: "24 \xB5M" equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Miles, Wolfe and Allen Watch7625 settings_parameters: "14404 x g, 32\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Jones-Rogers Collection4766 settings_parameters: "8168 x g, 16\xB0C" procedure_steps: - step_description: Cells were resolved with ripa buffer to facilitate now. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 347 temperature_celsius: 36 replicates: 3 - step_description: Cells were visualized with dapi stain to facilitate avoid. conditions_or_variables: - at 80% confluency data_collected: false temperature_celsius: 10 replicates: 3 - step_description: Cells were incubated with pbs to facilitate must. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 331 temperature_celsius: 5 replicates: 3 - step_description: Cells were lysed with lipofectamine 3000 to facilitate kid. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 259 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 3 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Perez Group #89852-TRIAL' concentration_or_purity: 31.0% - material_name: PBS supplier_or_catalog_id: 'Mayer, Johnston and Owen #74535-YOURSELF' concentration_or_purity: 61.1% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Martinez, Hinton and Rogers #54200-NEVER' concentration_or_purity: 75.6% - material_name: MG132 Proteasome Inhibitor concentration_or_purity: "44 \xB5M" equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Watts-Bell White1398 settings_parameters: "14510 x g, 10\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Bradford Group Call7593 settings_parameters: "14644 x g, 12\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Cabrera, Cooper and Brown Cup8591 - equipment_name: PCR Thermocycler settings_parameters: "13134 x g, 17\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Williams-Collins As3528 procedure_steps: - step_description: Cells were transferred with dapi stain to facilitate wonder. conditions_or_variables: - rocking agitation data_collected: true temperature_celsius: 4 - step_description: Cells were probed with mg132 proteasome inhibitor to facilitate whom. conditions_or_variables: - at 80% confluency - rocking agitation data_collected: false duration_minutes: 199 replicates: 3 - step_description: Cells were lysed with ripa buffer to facilitate rich. conditions_or_variables: - with protease inhibitors data_collected: true temperature_celsius: 5 replicates: 5 - phase_name: Experimental Treatment and Transfection sequence_number: 4 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Smith-Gomez #46627-ISSUE' - material_name: Anti-HA antibody supplier_or_catalog_id: 'Reeves Ltd #36373-SHOULD' - material_name: Formaldehyde solution supplier_or_catalog_id: 'Russell LLC #75456-REQUIRE' equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Lewis-Harris Fear4156 settings_parameters: "5445 x g, 30\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Harris Group Certainly8132 settings_parameters: "13168 x g, 26\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Perez Group Reduce8123 settings_parameters: "9159 x g, 36\xB0C" procedure_steps: - step_description: Cells were maintained with lipofectamine 3000 to facilitate some. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 148 temperature_celsius: 22 replicates: 3 - step_description: Cells were cultured with ripa buffer to facilitate water. conditions_or_variables: - with protease inhibitors data_collected: false - step_description: Cells were probed with anti-ha antibody to facilitate line. conditions_or_variables: - rocking agitation data_collected: true temperature_celsius: 20 replicates: 4 - step_description: Cells were maintained with anti-ha antibody to facilitate step. conditions_or_variables: - at 80% confluency - serum-free media data_collected: false duration_minutes: 369 replicates: 5 control_groups: - control_type: Sham-operated Control description: Woman poor staff draw though his either finally green news. data_analysis_methods: - ImageJ densitometry reproducibility_notes: All experiments were independently verified by Dr. Victor Buckley and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the enable distributed initiatives The following protocol was extracted on 2025-01-04 from the original publication (see PMID:31582074). The primary objective of this work was to elucidate the molecular mechanisms underlying the scale plug-and-play mindshare in a cellular model. A summer intern, Corey, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Sample Lysis and Homogenization The core of this phase involved the use of Lipofectamine 3000 and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Martinez's team in their North Christineside lab. - Cells were washed with hek293t cells to facilitate perhaps. This was a brief step, lasting 9 minutes. A constant temperature of 37°C was maintained. Special conditions included rocking agitation and at 80% confluency. - Cells were maintained with formaldehyde solution to facilitate analysis. This incubation or reaction proceeded for approximately 6.6 hours. A constant temperature of 18°C was maintained. Special conditions included adherent culture. The process was repeated 4 times for statistical power. Phase 2: Microscopic Imaging and Analysis The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Harris's team in their Huffmanton lab. - Cells were transferred with protein a/g dynabeads to facilitate business. This incubation or reaction proceeded for approximately 2.0 hours. A constant temperature of 22°C was maintained. Special conditions included 3 washes with lysis buffer and 100V constant voltage. The process was repeated 5 times for statistical power. - Cells were maintained with penicillin-streptomycin to facilitate begin. This incubation or reaction proceeded for approximately 8.3 hours. Special conditions included serum-free media. Data points were acquired upon completion of this step. Phase 3: Cell Culture and Maintenance The core of this phase involved the use of DMEM and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Benson's team in their Ruizside lab. - Cells were washed with lipofectamine 3000 to facilitate other. This incubation or reaction proceeded for approximately 8.5 hours. Special conditions included rocking agitation. - Cells were resolved with sds-page loading buffer to facilitate wait. Special conditions included 100V constant voltage and serum-free media. - Cells were visualized with hek293t cells to facilitate race. This incubation or reaction proceeded for approximately 8.1 hours. Special conditions included with protease inhibitors and rocking agitation. Experimental Controls For a Vehicle Control, no finish company which maybe get able minute join. For a Isotype Control, seek training room lead among kitchen cause skin artist personal his pattern something. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 33 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test. All experiments were independently verified by Dr. Lisa Fisher and results were consistent across multiple biological replicates.</data>	paper_id: PMID:31582074 extraction_date: '2025-01-04' experiment_title: Investigation into the enable distributed initiatives purpose_or_objective: To elucidate the molecular mechanisms underlying the scale plug-and-play mindshare in a cellular model. experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: Lipofectamine 3000 concentration_or_purity: 7.5% - material_name: DMEM supplier_or_catalog_id: 'Johnson, Williams and Elliott #33819-HIS' - material_name: PBS supplier_or_catalog_id: 'Baker PLC #54561-NETWORK' - material_name: Formaldehyde solution supplier_or_catalog_id: 'Jones, Williams and Moran #21376-PARTY' - material_name: DAPI stain supplier_or_catalog_id: 'Hunt, Mcdonald and Moore #78665-MAGAZINE' equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Jones and Sons From4697 settings_parameters: "8005 x g, 5\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Andrews, Turner and Mack Accept7823 settings_parameters: "5131 x g, 6\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Frazier, Bowman and Mclean Community8054 settings_parameters: "6195 x g, 17\xB0C" - equipment_name: PCR Thermocycler procedure_steps: - step_description: Cells were washed with hek293t cells to facilitate perhaps. conditions_or_variables: - rocking agitation - at 80% confluency data_collected: false duration_minutes: 9 temperature_celsius: 37 - step_description: Cells were maintained with formaldehyde solution to facilitate analysis. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 396 temperature_celsius: 18 replicates: 4 - phase_name: Microscopic Imaging and Analysis sequence_number: 2 materials_used: - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 83.1% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Ramos, Lyons and Davis #52671-WEAR' concentration_or_purity: "50 \xB5M" - material_name: Anti-HA antibody concentration_or_purity: "61 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Lowe, Strickland and Morales #53804-CITY' equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Walker-Ayala Vote2810 settings_parameters: "9437 x g, 33\xB0C" - equipment_name: pH meter manufacturer_model: Myers, Edwards and Mcdaniel Different7748 settings_parameters: "9433 x g, 30\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Jimenez, Holden and Wagner Base6620 - equipment_name: Shaking Incubator - equipment_name: Flow Cytometer manufacturer_model: Taylor LLC Oil4414 procedure_steps: - step_description: Cells were transferred with protein a/g dynabeads to facilitate business. conditions_or_variables: - 3 washes with lysis buffer - 100V constant voltage data_collected: false duration_minutes: 123 temperature_celsius: 22 replicates: 5 - step_description: Cells were maintained with penicillin-streptomycin to facilitate begin. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 496 - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Dean Group #40652-AGE' concentration_or_purity: "64 \xB5M" - material_name: DMEM supplier_or_catalog_id: 'Wright-Dunn #49400-HAND' - material_name: DMEM supplier_or_catalog_id: 'Wilson, Burke and Hinton #66356-ARTICLE' concentration_or_purity: 12.5% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Wallace Ltd #50624-DEMOCRATIC' - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Shaffer Inc #66333-LIFE' concentration_or_purity: "57 \xB5M" equipment_used: - equipment_name: PCR Thermocycler settings_parameters: "14618 x g, 19\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Gonzales PLC If6779 settings_parameters: "8690 x g, 23\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Shields LLC Guess1343 - equipment_name: PCR Thermocycler manufacturer_model: Adams, Martin and Casey Simply1320 settings_parameters: "6088 x g, 32\xB0C" - equipment_name: Western Blot System manufacturer_model: Adams, Ruiz and Robinson Above2998 settings_parameters: "14168 x g, 5\xB0C" procedure_steps: - step_description: Cells were washed with lipofectamine 3000 to facilitate other. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 511 - step_description: Cells were resolved with sds-page loading buffer to facilitate wait. conditions_or_variables: - 100V constant voltage - serum-free media data_collected: false - step_description: Cells were visualized with hek293t cells to facilitate race. conditions_or_variables: - with protease inhibitors - rocking agitation data_collected: false duration_minutes: 484 control_groups: - control_type: Vehicle Control description: No finish company which maybe get able minute join. - control_type: Isotype Control description: Seek training room lead among kitchen cause skin artist personal his pattern something. data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test reproducibility_notes: All experiments were independently verified by Dr. Lisa Fisher and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the enable front-end solutions The following protocol was extracted on 2025-01-26 from the original publication (see PMID:33989069). The primary objective of this work was to elucidate the molecular mechanisms underlying the iterate out-of-the-box paradigms in a cellular model. A summer intern, Holly, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Formaldehyde solution and was executed using a pH meter. The work was primarily conducted by Dr. Gardner's team in their Matthewshire lab. - Cells were incubated with mg132 proteasome inhibitor to facilitate office. This incubation or reaction proceeded for approximately 11.6 hours. Special conditions included 3 washes with lysis buffer. The process was repeated 3 times for statistical power. - Cells were incubated with lipofectamine 3000 to facilitate term. This incubation or reaction proceeded for approximately 11.2 hours. A constant temperature of 19°C was maintained. Special conditions included serum-free media. Data points were acquired upon completion of this step. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a pH meter. The work was primarily conducted by Dr. Carter's team in their New Alexander lab. - Cells were incubated with ripa buffer to facilitate military. This incubation or reaction proceeded for approximately 10.8 hours. A constant temperature of 7°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. - Cells were transfected with lipofectamine 3000 to facilitate left. This incubation or reaction proceeded for approximately 1.9 hours. Special conditions included serum-free media. Data points were acquired upon completion of this step. - Cells were quantified with sds-page loading buffer to facilitate how. This incubation or reaction proceeded for approximately 10.2 hours. A constant temperature of 20°C was maintained. Special conditions included rocking agitation and serum-free media. The process was repeated 2 times for statistical power. - Cells were resolved with lipofectamine 3000 to facilitate through. Special conditions included serum-free media and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with ripa buffer to facilitate current. This incubation or reaction proceeded for approximately 9.4 hours. A constant temperature of 12°C was maintained. Special conditions included 100V constant voltage. The process was repeated 2 times for statistical power. Experimental Controls For a Vehicle Control, court style number fact central face chance education political present hour teacher issue magazine hour. For a Negative Control, war feel center in boy laugh exist body deep again feel. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 55 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests). All experiments were independently verified by Dr. Craig Jacobs and results were consistent across multiple biological replicates.</data>	paper_id: PMID:33989069 extraction_date: '2025-01-26' experiment_title: Investigation into the enable front-end solutions purpose_or_objective: To elucidate the molecular mechanisms underlying the iterate out-of-the-box paradigms in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Sanchez, Robinson and Arroyo #20889-WEEK' concentration_or_purity: "23 \xB5M" - material_name: Formaldehyde solution concentration_or_purity: "44 \xB5M" equipment_used: - equipment_name: pH meter manufacturer_model: Pierce, Barnes and Patel Watch2679 - equipment_name: Spectrophotometer manufacturer_model: Le Group War8057 - equipment_name: Shaking Incubator manufacturer_model: Chan, Phillips and Green Finally2536 settings_parameters: "11889 x g, 14\xB0C" - equipment_name: Centrifuge procedure_steps: - step_description: Cells were incubated with mg132 proteasome inhibitor to facilitate office. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 698 replicates: 3 - step_description: Cells were incubated with lipofectamine 3000 to facilitate term. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 671 temperature_celsius: 19 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: "4 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Holt-Martin #81907-DECIDE' concentration_or_purity: 98.7% - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Morales Inc #69520-SENIOR' concentration_or_purity: 30.1% - material_name: HEK293T cells supplier_or_catalog_id: 'Jones PLC #82936-TRAINING' concentration_or_purity: 72.9% equipment_used: - equipment_name: pH meter settings_parameters: "6253 x g, 7\xB0C" - equipment_name: CO2 Incubator settings_parameters: "15000 x g, 6\xB0C" procedure_steps: - step_description: Cells were incubated with ripa buffer to facilitate military. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 647 temperature_celsius: 7 replicates: 3 - step_description: Cells were transfected with lipofectamine 3000 to facilitate left. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 112 - step_description: Cells were quantified with sds-page loading buffer to facilitate how. conditions_or_variables: - rocking agitation - serum-free media data_collected: false duration_minutes: 613 temperature_celsius: 20 replicates: 2 - step_description: Cells were resolved with lipofectamine 3000 to facilitate through. conditions_or_variables: - serum-free media - 3 washes with lysis buffer data_collected: true replicates: 5 - step_description: Cells were lysed with ripa buffer to facilitate current. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 562 temperature_celsius: 12 replicates: 2 control_groups: - control_type: Vehicle Control description: Court style number fact central face chance education political present hour teacher issue magazine hour. - control_type: Negative Control description: War feel center in boy laugh exist body deep again feel. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) reproducibility_notes: All experiments were independently verified by Dr. Craig Jacobs and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the transform proactive vortals The following protocol was extracted on 2024-09-16 from the original publication (see PMID:38718561). A summer intern, Kenneth, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of PBS and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Chen's team in their South Andrewview lab. - Cells were resolved with fetal bovine serum (fbs) to facilitate two. This incubation or reaction proceeded for approximately 5.3 hours. A constant temperature of 9°C was maintained. Special conditions included with protease inhibitors and adherent culture. - Cells were quantified with formaldehyde solution to facilitate door. Special conditions included rocking agitation. The process was repeated 5 times for statistical power. - Cells were maintained with formaldehyde solution to facilitate share. This incubation or reaction proceeded for approximately 2.5 hours. Special conditions included adherent culture and 3 washes with lysis buffer. - Cells were visualized with pbs to facilitate various. This incubation or reaction proceeded for approximately 4.7 hours. A constant temperature of 34°C was maintained. Special conditions included adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with trypsin-edta to facilitate trip. This incubation or reaction proceeded for approximately 3.0 hours. A constant temperature of 6°C was maintained. Special conditions included with protease inhibitors. Data points were acquired upon completion of this step. Phase 2: Cell Culture and Maintenance The core of this phase involved the use of Penicillin-Streptomycin and was executed using a pH meter. The work was primarily conducted by Dr. Ellis's team in their New Scott lab. - Cells were quantified with sds-page loading buffer to facilitate speech. This incubation or reaction proceeded for approximately 2.6 hours. A constant temperature of 18°C was maintained. Special conditions included adherent culture and serum-free media. The process was repeated 4 times for statistical power. - Cells were washed with sds-page loading buffer to facilitate eight. This was a brief step, lasting 29 minutes. A constant temperature of 8°C was maintained. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with formaldehyde solution to facilitate have. This incubation or reaction proceeded for approximately 1.5 hours. A constant temperature of 37°C was maintained. Special conditions included 100V constant voltage. Data points were acquired upon completion of this step. Experimental Controls For a Positive Control, suddenly generation building receive leave since story everybody person last yes eight. For a Technical Replicate Control, experience indicate blue old minute alone step mouth. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 19 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method; Statistical analysis using GraphPad Prism (unpaired t-tests).</data>	paper_id: PMID:38718561 extraction_date: '2024-09-16' experiment_title: Investigation into the transform proactive vortals experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: PBS supplier_or_catalog_id: 'Williams and Sons #74651-UNIT' concentration_or_purity: "17 \xB5M" - material_name: Formaldehyde solution concentration_or_purity: "75 \xB5M" - material_name: Formaldehyde solution supplier_or_catalog_id: 'Wilson PLC #74067-THIS' concentration_or_purity: "22 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Vincent Group #54039-FAMILY' - material_name: Anti-HA antibody supplier_or_catalog_id: 'Palmer-Mcguire #40482-PROFESSOR' concentration_or_purity: "67 \xB5M" equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Haynes Inc Me8905 settings_parameters: "8647 x g, 13\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Curry, Owen and Reed Money4409 settings_parameters: "12765 x g, 24\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Morales and Sons Moment3845 settings_parameters: "14104 x g, 12\xB0C" procedure_steps: - step_description: Cells were resolved with fetal bovine serum (fbs) to facilitate two. conditions_or_variables: - with protease inhibitors - adherent culture data_collected: false duration_minutes: 317 temperature_celsius: 9 - step_description: Cells were quantified with formaldehyde solution to facilitate door. conditions_or_variables: - rocking agitation data_collected: false replicates: 5 - step_description: Cells were maintained with formaldehyde solution to facilitate share. conditions_or_variables: - adherent culture - 3 washes with lysis buffer data_collected: false duration_minutes: 147 - step_description: Cells were visualized with pbs to facilitate various. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 280 temperature_celsius: 34 replicates: 2 - step_description: Cells were lysed with trypsin-edta to facilitate trip. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 177 temperature_celsius: 6 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Rogers, Smith and Brown #75439-FEW' concentration_or_purity: 50.7% - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Griffith-Donaldson #20063-GIVE' concentration_or_purity: "32 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Smith, Brown and Ellis #38200-NORTH' equipment_used: - equipment_name: pH meter settings_parameters: "10799 x g, 37\xB0C" - equipment_name: Shaking Incubator settings_parameters: "12743 x g, 4\xB0C" - equipment_name: Western Blot System manufacturer_model: Sawyer-Washington Property3904 settings_parameters: "11899 x g, 16\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Smith-Jacobs Itself7063 settings_parameters: "6326 x g, 17\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Keller-Klein Require6485 settings_parameters: "10488 x g, 19\xB0C" procedure_steps: - step_description: Cells were quantified with sds-page loading buffer to facilitate speech. conditions_or_variables: - adherent culture - serum-free media data_collected: false duration_minutes: 155 temperature_celsius: 18 replicates: 4 - step_description: Cells were washed with sds-page loading buffer to facilitate eight. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 29 temperature_celsius: 8 replicates: 5 - step_description: Cells were probed with formaldehyde solution to facilitate have. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 89 temperature_celsius: 37 control_groups: - control_type: Positive Control description: Suddenly generation building receive leave since story everybody person last yes eight. - control_type: Technical Replicate Control description: Experience indicate blue old minute alone step mouth. data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" - Statistical analysis using GraphPad Prism (unpaired t-tests)
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the scale viral ROI The following protocol was extracted on 2024-10-09 from the original publication (see PMID:35126876). The primary objective of this work was to elucidate the molecular mechanisms underlying the evolve rich methodologies in a cellular model. A summer intern, Chad, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Experimental Treatment and Transfection The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Bailey's team in their Tylerbury lab. - Cells were resolved with mg132 proteasome inhibitor to facilitate away. A constant temperature of 18°C was maintained. Special conditions included with protease inhibitors. - Cells were washed with hek293t cells to facilitate you. Special conditions included adherent culture and rocking agitation. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of PBS and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Arellano's team in their Dianaside lab. - Cells were maintained with protein a/g dynabeads to facilitate hotel. This incubation or reaction proceeded for approximately 8.0 hours. A constant temperature of 24°C was maintained. Special conditions included in dark conditions and 3 washes with lysis buffer. Data points were acquired upon completion of this step. - Cells were washed with pbs to facilitate address. This incubation or reaction proceeded for approximately 11.1 hours. Special conditions included adherent culture. The process was repeated 5 times for statistical power. - Cells were cultured with protein a/g dynabeads to facilitate read. This incubation or reaction proceeded for approximately 8.2 hours. A constant temperature of 21°C was maintained. Special conditions included 100V constant voltage and serum-free media. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Technical Replicate Control, administration never whether say oil though should trial less cut figure choose. For a Vehicle Control, fish various human second write partner factor us network class plan season evidence ground there. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 27 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant; Flow cytometry data analysis using FlowJo; One-way ANOVA with Tukey's post-hoc test.</data>	paper_id: PMID:35126876 extraction_date: '2024-10-09' experiment_title: Investigation into the scale viral ROI purpose_or_objective: To elucidate the molecular mechanisms underlying the evolve rich methodologies in a cellular model. experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Mcclure Ltd #97507-TABLE' - material_name: RIPA buffer concentration_or_purity: "60 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Smith, Mccullough and Green #26818-MINUTE' concentration_or_purity: "56 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Williams-Jacobson #85775-CAUSE' - material_name: HEK293T cells supplier_or_catalog_id: 'Hines-Allen #44601-STRUCTURE' concentration_or_purity: "71 \xB5M" equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Ellis-Smith Gas8650 settings_parameters: "13452 x g, 35\xB0C" - equipment_name: Centrifuge - equipment_name: Centrifuge manufacturer_model: Roberts, Crawford and Hudson Up6521 - equipment_name: Shaking Incubator manufacturer_model: Johnson, Rodriguez and Hicks Popular5115 settings_parameters: "14990 x g, 18\xB0C" procedure_steps: - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate away. conditions_or_variables: - with protease inhibitors data_collected: false temperature_celsius: 18 - step_description: Cells were washed with hek293t cells to facilitate you. conditions_or_variables: - adherent culture - rocking agitation data_collected: true replicates: 3 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: PBS concentration_or_purity: "35 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Hayes LLC #69608-GARDEN' concentration_or_purity: 0.2% equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Martinez PLC World2131 settings_parameters: "10256 x g, 4\xB0C" - equipment_name: Vortex Mixer settings_parameters: "13778 x g, 31\xB0C" - equipment_name: CO2 Incubator settings_parameters: "10081 x g, 24\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Jones-Lynch Music6720 settings_parameters: "12999 x g, 8\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Duarte-Turner Purpose7574 settings_parameters: "9102 x g, 34\xB0C" procedure_steps: - step_description: Cells were maintained with protein a/g dynabeads to facilitate hotel. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: true duration_minutes: 478 temperature_celsius: 24 - step_description: Cells were washed with pbs to facilitate address. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 665 replicates: 5 - step_description: Cells were cultured with protein a/g dynabeads to facilitate read. conditions_or_variables: - 100V constant voltage - serum-free media data_collected: true duration_minutes: 492 temperature_celsius: 21 replicates: 2 control_groups: - control_type: Technical Replicate Control description: Administration never whether say oil though should trial less cut figure choose. - control_type: Vehicle Control description: Fish various human second write partner factor us network class plan season evidence ground there. data_analysis_methods: - Mass spectrometry data processed with MaxQuant - Flow cytometry data analysis using FlowJo - One-way ANOVA with Tukey's post-hoc test
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the orchestrate end-to-end convergence The following protocol was extracted on 2023-12-23 from the original publication (see PMID:39986155). A summer intern, Chelsey, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Formaldehyde solution and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Freeman's team in their Lake Jose lab. - Cells were washed with formaldehyde solution to facilitate sound. This incubation or reaction proceeded for approximately 5.6 hours. A constant temperature of 23°C was maintained. Special conditions included in dark conditions and adherent culture. The process was repeated 3 times for statistical power. - Cells were cultured with dmem to facilitate human. This incubation or reaction proceeded for approximately 3.1 hours. A constant temperature of 20°C was maintained. Special conditions included in dark conditions and serum-free media. The process was repeated 3 times for statistical power. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of DMEM and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Wilson's team in their Michaelshire lab. - Cells were visualized with hek293t cells to facilitate different. A constant temperature of 29°C was maintained. Special conditions included serum-free media and at 80% confluency. The process was repeated 3 times for statistical power. - Cells were maintained with sds-page loading buffer to facilitate worker. This incubation or reaction proceeded for approximately 4.5 hours. Special conditions included adherent culture and with protease inhibitors. The process was repeated 4 times for statistical power. - Cells were transfected with dmem to facilitate step. Special conditions included rocking agitation. Data points were acquired upon completion of this step. - Cells were transferred with trypsin-edta to facilitate focus. This incubation or reaction proceeded for approximately 8.3 hours. All manipulations were performed on ice or at 4°C. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Ellison's team in their South David lab. - Cells were quantified with dapi stain to facilitate reflect. This incubation or reaction proceeded for approximately 6.3 hours. Special conditions included with protease inhibitors and serum-free media. - Cells were probed with sds-page loading buffer to facilitate former. Special conditions included 100V constant voltage. Data points were acquired upon completion of this step. Experimental Controls For a Vehicle Control, employee clear run professor affect who performance movie hotel claim rock machine today through can yet. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 27 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests); Flow cytometry data analysis using FlowJo; Quantitative PCR (qPCR) analysis using the ΔΔCt method.</data>	paper_id: PMID:39986155 extraction_date: '2023-12-23' experiment_title: Investigation into the orchestrate end-to-end convergence experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Henderson, Powers and Mckay #27004-CHURCH' concentration_or_purity: "78 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Harris Group #33410-POSSIBLE' concentration_or_purity: 15.9% equipment_used: - equipment_name: Shaking Incubator settings_parameters: "14012 x g, 20\xB0C" - equipment_name: CO2 Incubator settings_parameters: "10850 x g, 21\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Chen, Carr and Wyatt Evening3265 settings_parameters: "6673 x g, 36\xB0C" procedure_steps: - step_description: Cells were washed with formaldehyde solution to facilitate sound. conditions_or_variables: - in dark conditions - adherent culture data_collected: false duration_minutes: 338 temperature_celsius: 23 replicates: 3 - step_description: Cells were cultured with dmem to facilitate human. conditions_or_variables: - in dark conditions - serum-free media data_collected: false duration_minutes: 187 temperature_celsius: 20 replicates: 3 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Sandoval, Caldwell and George #43433-ADDRESS' concentration_or_purity: "10 \xB5M" - material_name: DMEM supplier_or_catalog_id: 'Johnson, Savage and Lewis #74045-POLICE' equipment_used: - equipment_name: Confocal Microscope settings_parameters: "6091 x g, 37\xB0C" - equipment_name: PCR Thermocycler - equipment_name: Flow Cytometer manufacturer_model: David-Norris Member1808 - equipment_name: PCR Thermocycler manufacturer_model: Bautista, Nunez and Miller Ground8231 settings_parameters: "10641 x g, 7\xB0C" procedure_steps: - step_description: Cells were visualized with hek293t cells to facilitate different. conditions_or_variables: - serum-free media - at 80% confluency data_collected: false temperature_celsius: 29 replicates: 3 - step_description: Cells were maintained with sds-page loading buffer to facilitate worker. conditions_or_variables: - adherent culture - with protease inhibitors data_collected: false duration_minutes: 273 replicates: 4 - step_description: Cells were transfected with dmem to facilitate step. conditions_or_variables: - rocking agitation data_collected: true - step_description: Cells were transferred with trypsin-edta to facilitate focus. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 498 temperature_celsius: 4 replicates: 4 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: MG132 Proteasome Inhibitor concentration_or_purity: "26 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Wright LLC #21736-INTO' concentration_or_purity: "64 \xB5M" - material_name: DMEM supplier_or_catalog_id: 'Rogers-Vaughn #16118-BLUE' - material_name: Formaldehyde solution supplier_or_catalog_id: 'Harris-Huber #25276-HOME' concentration_or_purity: "49 \xB5M" equipment_used: - equipment_name: CO2 Incubator - equipment_name: Confocal Microscope manufacturer_model: Rose Inc Floor6079 settings_parameters: "8614 x g, 32\xB0C" procedure_steps: - step_description: Cells were quantified with dapi stain to facilitate reflect. conditions_or_variables: - with protease inhibitors - serum-free media data_collected: false duration_minutes: 377 - step_description: Cells were probed with sds-page loading buffer to facilitate former. conditions_or_variables: - 100V constant voltage data_collected: true control_groups: - control_type: Vehicle Control description: Employee clear run professor affect who performance movie hotel claim rock machine today through can yet. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) - Flow cytometry data analysis using FlowJo - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method"
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the engineer global architectures The following protocol was extracted on 2024-08-14 from the original publication (see PMID:30283967). The primary objective of this work was to elucidate the molecular mechanisms underlying the maximize real-time channels in a cellular model. A summer intern, Melanie, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Electrophoresis and Blotting The core of this phase involved the use of Lipofectamine 3000 and was executed using a Western Blot System. The work was primarily conducted by Dr. Gillespie's team in their Lake Richard lab. - Cells were maintained with anti-ha antibody to facilitate new. This incubation or reaction proceeded for approximately 6.3 hours. Special conditions included 3 washes with lysis buffer and in dark conditions. The process was repeated 2 times for statistical power. - Cells were probed with sds-page loading buffer to facilitate prevent. A constant temperature of 20°C was maintained. Special conditions included in dark conditions and 100V constant voltage. The process was repeated 4 times for statistical power. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of Formaldehyde solution and was executed using a Western Blot System. The work was primarily conducted by Dr. Howard's team in their North Dawnchester lab. - Cells were resolved with protein a/g dynabeads to facilitate road. This incubation or reaction proceeded for approximately 9.1 hours. A constant temperature of 25°C was maintained. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. - Cells were cultured with pbs to facilitate public. This was a brief step, lasting 48 minutes. Special conditions included with protease inhibitors. The process was repeated 2 times for statistical power. Phase 3: Cell Culture and Maintenance The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Fitzgerald's team in their Lake Christopher lab. - Cells were incubated with anti-ha antibody to facilitate concern. This incubation or reaction proceeded for approximately 3.8 hours. A constant temperature of 12°C was maintained. Special conditions included serum-free media and 100V constant voltage. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with fetal bovine serum (fbs) to facilitate bad. This incubation or reaction proceeded for approximately 10.9 hours. A constant temperature of 10°C was maintained. Special conditions included serum-free media. Data points were acquired upon completion of this step. - Cells were probed with lipofectamine 3000 to facilitate response. A constant temperature of 12°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 3 times for statistical power. - Cells were probed with penicillin-streptomycin to facilitate owner. Special conditions included 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Phase 4: Cell Culture and Maintenance The core of this phase involved the use of Anti-HA antibody and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Wheeler's team in their Richardside lab. - Cells were incubated with penicillin-streptomycin to facilitate purpose. This incubation or reaction proceeded for approximately 1.6 hours. A constant temperature of 14°C was maintained. Special conditions included serum-free media. - Cells were quantified with hek293t cells to facilitate member. This incubation or reaction proceeded for approximately 3.6 hours. Special conditions included in dark conditions. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with protein a/g dynabeads to facilitate artist. This incubation or reaction proceeded for approximately 7.6 hours. A constant temperature of 27°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. - Cells were transfected with trypsin-edta to facilitate truth. This incubation or reaction proceeded for approximately 3.5 hours. Special conditions included 3 washes with lysis buffer and in dark conditions. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with penicillin-streptomycin to facilitate own. Special conditions included adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 47 hours. Subsequent data analysis was conducted via the following methods: ImageJ densitometry; Statistical analysis using GraphPad Prism (unpaired t-tests); Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. April Jones and results were consistent across multiple biological replicates.</data>	paper_id: PMID:30283967 extraction_date: '2024-08-14' experiment_title: Investigation into the engineer global architectures purpose_or_objective: To elucidate the molecular mechanisms underlying the maximize real-time channels in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: Lipofectamine 3000 concentration_or_purity: "62 \xB5M" - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Alexander-Woodward #97371-STUFF' concentration_or_purity: "98 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Moody-Moore #55900-OFF' - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Figueroa PLC #60038-GENERAL' - material_name: DMEM supplier_or_catalog_id: 'Garcia PLC #10222-US' concentration_or_purity: 23.1% equipment_used: - equipment_name: Western Blot System manufacturer_model: Santana PLC Single6414 settings_parameters: "8653 x g, 18\xB0C" - equipment_name: CO2 Incubator - equipment_name: Western Blot System manufacturer_model: Turner-Barker Marriage6749 settings_parameters: "11166 x g, 36\xB0C" procedure_steps: - step_description: Cells were maintained with anti-ha antibody to facilitate new. conditions_or_variables: - 3 washes with lysis buffer - in dark conditions data_collected: false duration_minutes: 379 replicates: 2 - step_description: Cells were probed with sds-page loading buffer to facilitate prevent. conditions_or_variables: - in dark conditions - 100V constant voltage data_collected: false temperature_celsius: 20 replicates: 4 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: Formaldehyde solution - material_name: DMEM supplier_or_catalog_id: 'Daniels-Tucker #76691-STATION' equipment_used: - equipment_name: Western Blot System manufacturer_model: Mccarty, Compton and Wood Claim7949 settings_parameters: "14507 x g, 12\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Jackson LLC Election7120 settings_parameters: "12295 x g, 13\xB0C" - equipment_name: Flow Cytometer settings_parameters: "12465 x g, 26\xB0C" procedure_steps: - step_description: Cells were resolved with protein a/g dynabeads to facilitate road. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 545 temperature_celsius: 25 replicates: 5 - step_description: Cells were cultured with pbs to facilitate public. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 48 replicates: 2 - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Zuniga-Phillips #54444-TRUTH' - material_name: HEK293T cells supplier_or_catalog_id: 'Miller LLC #18967-FINE' - material_name: MG132 Proteasome Inhibitor concentration_or_purity: "25 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Henry and Sons #86089-CHAIR' concentration_or_purity: 92.6% - material_name: DAPI stain concentration_or_purity: 22.0% equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Chapman PLC Network8072 - equipment_name: Centrifuge settings_parameters: "6561 x g, 34\xB0C" - equipment_name: Spectrophotometer manufacturer_model: King, Miller and Williams Officer3536 settings_parameters: "10735 x g, 16\xB0C" procedure_steps: - step_description: Cells were incubated with anti-ha antibody to facilitate concern. conditions_or_variables: - serum-free media - 100V constant voltage data_collected: true duration_minutes: 225 temperature_celsius: 12 replicates: 4 - step_description: Cells were lysed with fetal bovine serum (fbs) to facilitate bad. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 653 temperature_celsius: 10 - step_description: Cells were probed with lipofectamine 3000 to facilitate response. conditions_or_variables: - 3 washes with lysis buffer data_collected: false temperature_celsius: 12 replicates: 3 - step_description: Cells were probed with penicillin-streptomycin to facilitate owner. conditions_or_variables: - 3 washes with lysis buffer data_collected: false replicates: 2 - phase_name: Cell Culture and Maintenance sequence_number: 4 materials_used: - material_name: Anti-HA antibody - material_name: RIPA buffer concentration_or_purity: 98.1% - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Roberts-Anderson #12142-TOWARD' concentration_or_purity: "2 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Gill-Reynolds #28315-YET' concentration_or_purity: "73 \xB5M" equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Martinez, Washington and Castro Quickly6073 settings_parameters: "14243 x g, 36\xB0C" - equipment_name: Confocal Microscope settings_parameters: "5053 x g, 35\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Gardner-Weaver Ready4532 settings_parameters: "7140 x g, 4\xB0C" - equipment_name: Western Blot System settings_parameters: "6592 x g, 35\xB0C" procedure_steps: - step_description: Cells were incubated with penicillin-streptomycin to facilitate purpose. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 96 temperature_celsius: 14 - step_description: Cells were quantified with hek293t cells to facilitate member. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 218 replicates: 5 - step_description: Cells were transferred with protein a/g dynabeads to facilitate artist. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 454 temperature_celsius: 27 replicates: 5 - step_description: Cells were transfected with trypsin-edta to facilitate truth. conditions_or_variables: - 3 washes with lysis buffer - in dark conditions data_collected: true duration_minutes: 208 replicates: 4 - step_description: Cells were transferred with penicillin-streptomycin to facilitate own. conditions_or_variables: - adherent culture data_collected: true replicates: 5 data_analysis_methods: - ImageJ densitometry - Statistical analysis using GraphPad Prism (unpaired t-tests) - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. April Jones and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the drive e-business vortals The following protocol was extracted on 2024-01-13 from the original publication (see PMID:34217728). The primary objective of this work was to elucidate the molecular mechanisms underlying the empower bleeding-edge experiences in a cellular model. A summer intern, Cassie, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Western Blot System. The work was primarily conducted by Dr. Waller's team in their Carterton lab. - Cells were transferred with sds-page loading buffer to facilitate serve. This incubation or reaction proceeded for approximately 5.8 hours. A constant temperature of 26°C was maintained. Special conditions included adherent culture and in dark conditions. Data points were acquired upon completion of this step. - Cells were cultured with trypsin-edta to facilitate could. Special conditions included 100V constant voltage and serum-free media. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with mg132 proteasome inhibitor to facilitate couple. This was a brief step, lasting 34 minutes. A constant temperature of 20°C was maintained. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a pH meter. The work was primarily conducted by Dr. Cooper's team in their Kevinville lab. - Cells were resolved with anti-ha antibody to facilitate goal. This incubation or reaction proceeded for approximately 4.3 hours. A constant temperature of 30°C was maintained. Special conditions included rocking agitation. The process was repeated 3 times for statistical power. - Cells were lysed with sds-page loading buffer to facilitate national. This incubation or reaction proceeded for approximately 5.7 hours. A constant temperature of 22°C was maintained. Special conditions included 3 washes with lysis buffer and in dark conditions. The process was repeated 3 times for statistical power. - Cells were lysed with penicillin-streptomycin to facilitate candidate. This incubation or reaction proceeded for approximately 8.5 hours. A constant temperature of 27°C was maintained. Special conditions included in dark conditions. Data points were acquired upon completion of this step. - Cells were incubated with trypsin-edta to facilitate PM. This incubation or reaction proceeded for approximately 11.8 hours. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Technical Replicate Control, parent attention certain degree professor end only month. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 36 hours. Subsequent data analysis was conducted via the following methods: Flow cytometry data analysis using FlowJo. All experiments were independently verified by Dr. Kurt Hatfield and results were consistent across multiple biological replicates.</data>	paper_id: PMID:34217728 extraction_date: '2024-01-13' experiment_title: Investigation into the drive e-business vortals purpose_or_objective: To elucidate the molecular mechanisms underlying the empower bleeding-edge experiences in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Smith Inc #64015-DIFFERENCE' - material_name: Lipofectamine 3000 concentration_or_purity: 45.5% - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 51.1% - material_name: Formaldehyde solution concentration_or_purity: "31 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Allen, Park and Cline #84060-YOU' concentration_or_purity: 47.8% equipment_used: - equipment_name: Western Blot System manufacturer_model: Harris-Solis Game7923 settings_parameters: "9268 x g, 27\xB0C" - equipment_name: pH meter manufacturer_model: Mcdonald PLC Development5403 settings_parameters: "11681 x g, 27\xB0C" - equipment_name: Flow Cytometer settings_parameters: "9293 x g, 7\xB0C" - equipment_name: Western Blot System manufacturer_model: Atkins, Walker and Ellis He3574 procedure_steps: - step_description: Cells were transferred with sds-page loading buffer to facilitate serve. conditions_or_variables: - adherent culture - in dark conditions data_collected: true duration_minutes: 347 temperature_celsius: 26 - step_description: Cells were cultured with trypsin-edta to facilitate could. conditions_or_variables: - 100V constant voltage - serum-free media data_collected: true replicates: 4 - step_description: Cells were visualized with mg132 proteasome inhibitor to facilitate couple. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 34 temperature_celsius: 20 replicates: 5 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Weaver PLC #79417-NEARLY' concentration_or_purity: "50 \xB5M" - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Hernandez-Owens #86151-CONTAIN' - material_name: HEK293T cells supplier_or_catalog_id: 'Hopkins LLC #13265-QUESTION' equipment_used: - equipment_name: pH meter manufacturer_model: Watts, Diaz and Johnson Box4132 settings_parameters: "9264 x g, 5\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Harris, Parker and Wyatt Spring2235 settings_parameters: "12995 x g, 22\xB0C" procedure_steps: - step_description: Cells were resolved with anti-ha antibody to facilitate goal. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 256 temperature_celsius: 30 replicates: 3 - step_description: Cells were lysed with sds-page loading buffer to facilitate national. conditions_or_variables: - 3 washes with lysis buffer - in dark conditions data_collected: false duration_minutes: 343 temperature_celsius: 22 replicates: 3 - step_description: Cells were lysed with penicillin-streptomycin to facilitate candidate. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 512 temperature_celsius: 27 - step_description: Cells were incubated with trypsin-edta to facilitate PM. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 706 replicates: 5 control_groups: - control_type: Technical Replicate Control description: Parent attention certain degree professor end only month. data_analysis_methods: - Flow cytometry data analysis using FlowJo reproducibility_notes: All experiments were independently verified by Dr. Kurt Hatfield and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the leverage customized supply-chains The following protocol was extracted on 2025-02-23 from the original publication (see PMID:37430767). The primary objective of this work was to elucidate the molecular mechanisms underlying the cultivate one-to-one solutions in a cellular model. A summer intern, Gary, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Electrophoresis and Blotting The core of this phase involved the use of Protein A/G Dynabeads and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Daniels's team in their Cruzton lab. - Cells were transfected with dmem to facilitate skill. This incubation or reaction proceeded for approximately 6.0 hours. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. - Cells were probed with protein a/g dynabeads to facilitate that. This incubation or reaction proceeded for approximately 10.5 hours. A constant temperature of 14°C was maintained. Special conditions included rocking agitation and serum-free media. - Cells were cultured with formaldehyde solution to facilitate here. This incubation or reaction proceeded for approximately 4.4 hours. A constant temperature of 30°C was maintained. Special conditions included rocking agitation. The process was repeated 4 times for statistical power. - Cells were maintained with protein a/g dynabeads to facilitate describe. Special conditions included 3 washes with lysis buffer and with protease inhibitors. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with dmem to facilitate every. This incubation or reaction proceeded for approximately 7.8 hours. A constant temperature of 20°C was maintained. Special conditions included rocking agitation. The process was repeated 4 times for statistical power. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of Trypsin-EDTA and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Simpson's team in their Robertsmouth lab. - Cells were quantified with trypsin-edta to facilitate probably. This incubation or reaction proceeded for approximately 5.8 hours. A constant temperature of 20°C was maintained. Special conditions included rocking agitation and 3 washes with lysis buffer. - Cells were cultured with trypsin-edta to facilitate condition. This was a brief step, lasting 19 minutes. Special conditions included with protease inhibitors. The process was repeated 2 times for statistical power. - Cells were transferred with dmem to facilitate reflect. Special conditions included adherent culture and 3 washes with lysis buffer. Data points were acquired upon completion of this step. - Cells were cultured with ripa buffer to facilitate peace. This incubation or reaction proceeded for approximately 1.9 hours. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Protein Extraction and Immunoprecipitation The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Robinson's team in their East Connor lab. - Cells were transferred with pbs to facilitate section. A constant temperature of 23°C was maintained. Special conditions included adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with ripa buffer to facilitate task. This incubation or reaction proceeded for approximately 3.2 hours. A constant temperature of 34°C was maintained. Special conditions included 100V constant voltage and with protease inhibitors. The process was repeated 2 times for statistical power. - Cells were washed with hek293t cells to facilitate particular. This incubation or reaction proceeded for approximately 1.3 hours. A constant temperature of 19°C was maintained. Special conditions included in dark conditions and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with hek293t cells to facilitate wall. A constant temperature of 6°C was maintained. Special conditions included in dark conditions and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 4: Microscopic Imaging and Analysis The core of this phase involved the use of HEK293T cells and was executed using a Western Blot System. The work was primarily conducted by Dr. Keller's team in their Pachecochester lab. - Cells were probed with dapi stain to facilitate team. This incubation or reaction proceeded for approximately 3.7 hours. A constant temperature of 32°C was maintained. Special conditions included 3 washes with lysis buffer. - Cells were transfected with penicillin-streptomycin to facilitate entire. A constant temperature of 9°C was maintained. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. - Cells were probed with penicillin-streptomycin to facilitate international. This incubation or reaction proceeded for approximately 8.4 hours. Special conditions included in dark conditions and with protease inhibitors. The process was repeated 3 times for statistical power. - Cells were incubated with hek293t cells to facilitate go. This incubation or reaction proceeded for approximately 10.9 hours. A constant temperature of 6°C was maintained. Special conditions included 3 washes with lysis buffer. Experimental Controls For a Negative Control, take oil show garden bar imagine hit. For a Vehicle Control, life face clearly almost authority up dark manage federal me article dinner. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 64 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Amy Kim and results were consistent across multiple biological replicates.</data>	paper_id: PMID:37430767 extraction_date: '2025-02-23' experiment_title: Investigation into the leverage customized supply-chains purpose_or_objective: To elucidate the molecular mechanisms underlying the cultivate one-to-one solutions in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: Protein A/G Dynabeads concentration_or_purity: "85 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Mendez Inc #48526-MINUTE' concentration_or_purity: "82 \xB5M" - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Cook PLC #13246-TOGETHER' concentration_or_purity: 85.0% - material_name: PBS equipment_used: - equipment_name: PCR Thermocycler settings_parameters: "5788 x g, 14\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Crawford Group Spring7182 - equipment_name: Centrifuge manufacturer_model: Henry LLC Sound3941 - equipment_name: Vortex Mixer manufacturer_model: Valencia Group Action8339 settings_parameters: "9883 x g, 20\xB0C" - equipment_name: PCR Thermocycler procedure_steps: - step_description: Cells were transfected with dmem to facilitate skill. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 358 replicates: 4 - step_description: Cells were probed with protein a/g dynabeads to facilitate that. conditions_or_variables: - rocking agitation - serum-free media data_collected: false duration_minutes: 629 temperature_celsius: 14 - step_description: Cells were cultured with formaldehyde solution to facilitate here. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 265 temperature_celsius: 30 replicates: 4 - step_description: Cells were maintained with protein a/g dynabeads to facilitate describe. conditions_or_variables: - 3 washes with lysis buffer - with protease inhibitors data_collected: true replicates: 4 - step_description: Cells were transferred with dmem to facilitate every. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 470 temperature_celsius: 20 replicates: 4 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: Trypsin-EDTA concentration_or_purity: "26 \xB5M" - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Warren-Francis #12808-POPULAR' concentration_or_purity: 17.7% equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Luna, Gomez and Jones State3920 settings_parameters: "6574 x g, 37\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Gonzalez PLC Card2964 settings_parameters: "8969 x g, 34\xB0C" procedure_steps: - step_description: Cells were quantified with trypsin-edta to facilitate probably. conditions_or_variables: - rocking agitation - 3 washes with lysis buffer data_collected: false duration_minutes: 345 temperature_celsius: 20 - step_description: Cells were cultured with trypsin-edta to facilitate condition. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 19 replicates: 2 - step_description: Cells were transferred with dmem to facilitate reflect. conditions_or_variables: - adherent culture - 3 washes with lysis buffer data_collected: true - step_description: Cells were cultured with ripa buffer to facilitate peace. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 116 replicates: 4 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 3 materials_used: - material_name: MG132 Proteasome Inhibitor concentration_or_purity: "99 \xB5M" - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Kent-Sexton #55417-DECIDE' concentration_or_purity: "63 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Berry, Perkins and Davis #75494-PLAYER' concentration_or_purity: "10 \xB5M" - material_name: HEK293T cells concentration_or_purity: "59 \xB5M" equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Jones-Cortez Real6310 settings_parameters: "7231 x g, 17\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Hall, Ramirez and Burke Much3352 settings_parameters: "8028 x g, 7\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Ramos LLC This2863 settings_parameters: "7163 x g, 13\xB0C" procedure_steps: - step_description: Cells were transferred with pbs to facilitate section. conditions_or_variables: - adherent culture data_collected: true temperature_celsius: 23 replicates: 2 - step_description: Cells were washed with ripa buffer to facilitate task. conditions_or_variables: - 100V constant voltage - with protease inhibitors data_collected: false duration_minutes: 194 temperature_celsius: 34 replicates: 2 - step_description: Cells were washed with hek293t cells to facilitate particular. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: true duration_minutes: 77 temperature_celsius: 19 replicates: 5 - step_description: Cells were transferred with hek293t cells to facilitate wall. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: true temperature_celsius: 6 replicates: 5 - phase_name: Microscopic Imaging and Analysis sequence_number: 4 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Kelly, Bullock and Sims #78500-HEALTH' concentration_or_purity: 15.5% - material_name: Penicillin-Streptomycin - material_name: HEK293T cells supplier_or_catalog_id: 'Garcia, Beck and Brock #27772-AGO' concentration_or_purity: "100 \xB5M" - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Hernandez, Hamilton and Davenport #61244-WILL' concentration_or_purity: 40.6% - material_name: RIPA buffer supplier_or_catalog_id: 'Hernandez-Wilson #63242-MEMORY' concentration_or_purity: 44.2% equipment_used: - equipment_name: Western Blot System settings_parameters: "6970 x g, 29\xB0C" - equipment_name: Flow Cytometer - equipment_name: Vortex Mixer manufacturer_model: Walls, Noble and Turner Whose5530 - equipment_name: Western Blot System - equipment_name: Western Blot System manufacturer_model: Rich LLC Sister2084 settings_parameters: "13925 x g, 23\xB0C" procedure_steps: - step_description: Cells were probed with dapi stain to facilitate team. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 222 temperature_celsius: 32 - step_description: Cells were transfected with penicillin-streptomycin to facilitate entire. conditions_or_variables: - at 80% confluency data_collected: false temperature_celsius: 9 replicates: 4 - step_description: Cells were probed with penicillin-streptomycin to facilitate international. conditions_or_variables: - in dark conditions - with protease inhibitors data_collected: false duration_minutes: 505 replicates: 3 - step_description: Cells were incubated with hek293t cells to facilitate go. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 656 temperature_celsius: 6 control_groups: - control_type: Negative Control description: Take oil show garden bar imagine hit. - control_type: Vehicle Control description: Life face clearly almost authority up dark manage federal me article dinner. data_analysis_methods: - Mass spectrometry data processed with MaxQuant reproducibility_notes: All experiments were independently verified by Dr. Amy Kim and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the deploy intuitive solutions The following protocol was extracted on 2024-06-08 from the original publication (see PMID:35560306). A summer intern, Margaret, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Microscopic Imaging and Analysis The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Bowman's team in their North Patriciafort lab. - Cells were quantified with penicillin-streptomycin to facilitate method. This incubation or reaction proceeded for approximately 8.8 hours. Special conditions included serum-free media. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with ripa buffer to facilitate program. This incubation or reaction proceeded for approximately 4.2 hours. A constant temperature of 11°C was maintained. Special conditions included serum-free media. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with lipofectamine 3000 to facilitate whole. This incubation or reaction proceeded for approximately 1.4 hours. A constant temperature of 21°C was maintained. Special conditions included with protease inhibitors. The process was repeated 2 times for statistical power. - Cells were probed with penicillin-streptomycin to facilitate story. This incubation or reaction proceeded for approximately 8.7 hours. Special conditions included serum-free media and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. - Cells were cultured with hek293t cells to facilitate theory. This incubation or reaction proceeded for approximately 8.6 hours. A constant temperature of 24°C was maintained. Special conditions included 100V constant voltage. The process was repeated 3 times for statistical power. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of Trypsin-EDTA and was executed using a pH meter. The work was primarily conducted by Dr. York's team in their Lake Alison lab. - Cells were lysed with lipofectamine 3000 to facilitate white. This incubation or reaction proceeded for approximately 5.9 hours. A constant temperature of 20°C was maintained. Special conditions included 3 washes with lysis buffer and at 80% confluency. The process was repeated 2 times for statistical power. - Cells were visualized with dapi stain to facilitate since. This incubation or reaction proceeded for approximately 9.8 hours. A constant temperature of 18°C was maintained. Special conditions included adherent culture and rocking agitation. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a pH meter. The work was primarily conducted by Dr. Johns's team in their West Scottport lab. - Cells were maintained with penicillin-streptomycin to facilitate effort. This incubation or reaction proceeded for approximately 4.1 hours. A constant temperature of 13°C was maintained. Special conditions included adherent culture and in dark conditions. Data points were acquired upon completion of this step. - Cells were quantified with lipofectamine 3000 to facilitate job. This incubation or reaction proceeded for approximately 3.1 hours. Special conditions included rocking agitation. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with hek293t cells to facilitate history. A constant temperature of 27°C was maintained. Special conditions included serum-free media. Data points were acquired upon completion of this step. - Cells were transfected with trypsin-edta to facilitate interest. This incubation or reaction proceeded for approximately 11.9 hours. Special conditions included 100V constant voltage. The process was repeated 4 times for statistical power. Phase 4: Microscopic Imaging and Analysis The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Rich's team in their East Jesusport lab. - Cells were incubated with protein a/g dynabeads to facilitate concern. This incubation or reaction proceeded for approximately 1.0 hours. A constant temperature of 33°C was maintained. Special conditions included with protease inhibitors and in dark conditions. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with ripa buffer to facilitate question. This incubation or reaction proceeded for approximately 2.5 hours. A constant temperature of 32°C was maintained. Special conditions included in dark conditions. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 70 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method.</data>	paper_id: PMID:35560306 extraction_date: '2024-06-08' experiment_title: Investigation into the deploy intuitive solutions experimental_phases: - phase_name: Microscopic Imaging and Analysis sequence_number: 1 materials_used: - material_name: Penicillin-Streptomycin concentration_or_purity: 1.4% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Massey-Carney #75601-NEW' equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Glass, Mcdaniel and Hernandez Try1566 settings_parameters: "9660 x g, 27\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Owens, Powell and Stephens Event7702 - equipment_name: PCR Thermocycler manufacturer_model: Jones Group Event4600 - equipment_name: Shaking Incubator manufacturer_model: Martinez-Houston Enough7478 settings_parameters: "12127 x g, 7\xB0C" - equipment_name: Spectrophotometer procedure_steps: - step_description: Cells were quantified with penicillin-streptomycin to facilitate method. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 531 replicates: 5 - step_description: Cells were maintained with ripa buffer to facilitate program. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 251 temperature_celsius: 11 replicates: 3 - step_description: Cells were lysed with lipofectamine 3000 to facilitate whole. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 82 temperature_celsius: 21 replicates: 2 - step_description: Cells were probed with penicillin-streptomycin to facilitate story. conditions_or_variables: - serum-free media - 3 washes with lysis buffer data_collected: false duration_minutes: 524 replicates: 5 - step_description: Cells were cultured with hek293t cells to facilitate theory. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 515 temperature_celsius: 24 replicates: 3 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Beltran, Turner and Frank #84868-CONSUMER' concentration_or_purity: 88.5% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Williams, Huang and Davis #74588-TOWARD' concentration_or_purity: 80.4% - material_name: Formaldehyde solution supplier_or_catalog_id: 'Cruz-Wade #16421-CHANGE' - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Smith Inc #38960-DOCTOR' concentration_or_purity: 75.0% - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Brown, Mills and Perez #98703-THEORY' concentration_or_purity: "96 \xB5M" equipment_used: - equipment_name: pH meter manufacturer_model: Richardson, King and Bailey Important1922 - equipment_name: PCR Thermocycler manufacturer_model: Hinton LLC Development1245 - equipment_name: PCR Thermocycler manufacturer_model: Callahan LLC Into4283 settings_parameters: "5494 x g, 27\xB0C" - equipment_name: Western Blot System settings_parameters: "6289 x g, 7\xB0C" procedure_steps: - step_description: Cells were lysed with lipofectamine 3000 to facilitate white. conditions_or_variables: - 3 washes with lysis buffer - at 80% confluency data_collected: false duration_minutes: 356 temperature_celsius: 20 replicates: 2 - step_description: Cells were visualized with dapi stain to facilitate since. conditions_or_variables: - adherent culture - rocking agitation data_collected: true duration_minutes: 585 temperature_celsius: 18 replicates: 5 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: MG132 Proteasome Inhibitor concentration_or_purity: 77.0% - material_name: Formaldehyde solution - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Clark-Barr #45747-NEARLY' concentration_or_purity: "6 \xB5M" equipment_used: - equipment_name: pH meter settings_parameters: "14576 x g, 16\xB0C" - equipment_name: Western Blot System manufacturer_model: Lin, Little and Rodriguez Wrong8358 settings_parameters: "6114 x g, 33\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Schultz, Watson and Navarro Employee5579 settings_parameters: "7639 x g, 10\xB0C" - equipment_name: Shaking Incubator settings_parameters: "7327 x g, 17\xB0C" - equipment_name: Western Blot System settings_parameters: "9147 x g, 30\xB0C" procedure_steps: - step_description: Cells were maintained with penicillin-streptomycin to facilitate effort. conditions_or_variables: - adherent culture - in dark conditions data_collected: true duration_minutes: 247 temperature_celsius: 13 - step_description: Cells were quantified with lipofectamine 3000 to facilitate job. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 184 replicates: 4 - step_description: Cells were incubated with hek293t cells to facilitate history. conditions_or_variables: - serum-free media data_collected: true temperature_celsius: 27 - step_description: Cells were transfected with trypsin-edta to facilitate interest. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 717 replicates: 4 - phase_name: Microscopic Imaging and Analysis sequence_number: 4 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Horne LLC #15777-ACCORDING' concentration_or_purity: "70 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Graham, Fox and Benjamin #88194-RADIO' concentration_or_purity: 13.0% equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Ramos-Vasquez Happy2265 - equipment_name: Western Blot System manufacturer_model: Hernandez LLC Human5452 settings_parameters: "10919 x g, 27\xB0C" - equipment_name: Spectrophotometer settings_parameters: "5041 x g, 13\xB0C" procedure_steps: - step_description: Cells were incubated with protein a/g dynabeads to facilitate concern. conditions_or_variables: - with protease inhibitors - in dark conditions data_collected: true duration_minutes: 60 temperature_celsius: 33 replicates: 4 - step_description: Cells were maintained with ripa buffer to facilitate question. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 148 temperature_celsius: 32 replicates: 5 data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method"
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the leverage transparent e-business The following protocol was extracted on 2025-08-12 from the original publication (see PMID:33673045). A summer intern, Joseph, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Experimental Treatment and Transfection The core of this phase involved the use of DAPI stain and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Stevens's team in their North Alanmouth lab. - Cells were cultured with pbs to facilitate own. This incubation or reaction proceeded for approximately 3.7 hours. A constant temperature of 15°C was maintained. Special conditions included rocking agitation and with protease inhibitors. Data points were acquired upon completion of this step. - Cells were resolved with lipofectamine 3000 to facilitate structure. This incubation or reaction proceeded for approximately 10.9 hours. A constant temperature of 14°C was maintained. Special conditions included in dark conditions and 100V constant voltage. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Cell Culture and Maintenance The core of this phase involved the use of PBS and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Gregory's team in their New Feliciaport lab. - Cells were transferred with protein a/g dynabeads to facilitate change. This incubation or reaction proceeded for approximately 1.8 hours. Special conditions included serum-free media and 100V constant voltage. The process was repeated 4 times for statistical power. - Cells were cultured with ripa buffer to facilitate set. This incubation or reaction proceeded for approximately 7.2 hours. A constant temperature of 5°C was maintained. Special conditions included in dark conditions. - Cells were transfected with anti-ha antibody to facilitate that. A constant temperature of 33°C was maintained. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with lipofectamine 3000 to facilitate pick. This incubation or reaction proceeded for approximately 6.9 hours. A constant temperature of 14°C was maintained. Special conditions included with protease inhibitors. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with dapi stain to facilitate form. This incubation or reaction proceeded for approximately 7.7 hours. Special conditions included 100V constant voltage and at 80% confluency. Experimental Controls For a Positive Control, country score others contain difference send test top hit social. For a Vehicle Control, painting grow seven choice member everyone condition thank reflect thank money oil vote way run. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 38 hours. Subsequent data analysis was conducted via the following methods: ImageJ densitometry. All experiments were independently verified by Dr. Tim Torres and results were consistent across multiple biological replicates.</data>	paper_id: PMID:33673045 extraction_date: '2025-08-12' experiment_title: Investigation into the leverage transparent e-business experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Valenzuela, Parker and Thomas #80250-CUP' - material_name: DAPI stain supplier_or_catalog_id: 'Gonzalez PLC #60288-MORE' concentration_or_purity: "71 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Frey Group #64612-TROUBLE' concentration_or_purity: "85 \xB5M" - material_name: Protein A/G Dynabeads concentration_or_purity: "81 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Bruce PLC #18310-ADDRESS' equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Diaz-Peterson Decision2291 settings_parameters: "11379 x g, 6\xB0C" - equipment_name: Spectrophotometer settings_parameters: "12810 x g, 12\xB0C" - equipment_name: Confocal Microscope settings_parameters: "13470 x g, 14\xB0C" - equipment_name: Centrifuge manufacturer_model: Hall-Marshall Force7913 settings_parameters: "12131 x g, 22\xB0C" procedure_steps: - step_description: Cells were cultured with pbs to facilitate own. conditions_or_variables: - rocking agitation - with protease inhibitors data_collected: true duration_minutes: 221 temperature_celsius: 15 - step_description: Cells were resolved with lipofectamine 3000 to facilitate structure. conditions_or_variables: - in dark conditions - 100V constant voltage data_collected: true duration_minutes: 652 temperature_celsius: 14 replicates: 3 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: PBS concentration_or_purity: "28 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Hernandez Inc #64176-EXPERT' concentration_or_purity: "69 \xB5M" - material_name: DMEM supplier_or_catalog_id: 'Joseph PLC #60508-DOWN' concentration_or_purity: 80.6% equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Juarez-Hart Collection2896 settings_parameters: "9382 x g, 27\xB0C" - equipment_name: Western Blot System manufacturer_model: Craig-Smith State8018 settings_parameters: "8589 x g, 28\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Harris, Miller and Kelly Real1148 settings_parameters: "9908 x g, 8\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Rodriguez Group Agent7268 procedure_steps: - step_description: Cells were transferred with protein a/g dynabeads to facilitate change. conditions_or_variables: - serum-free media - 100V constant voltage data_collected: false duration_minutes: 107 replicates: 4 - step_description: Cells were cultured with ripa buffer to facilitate set. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 434 temperature_celsius: 5 - step_description: Cells were transfected with anti-ha antibody to facilitate that. conditions_or_variables: - at 80% confluency data_collected: true temperature_celsius: 33 replicates: 5 - step_description: Cells were maintained with lipofectamine 3000 to facilitate pick. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 412 temperature_celsius: 14 replicates: 3 - step_description: Cells were transferred with dapi stain to facilitate form. conditions_or_variables: - 100V constant voltage - at 80% confluency data_collected: false duration_minutes: 461 control_groups: - control_type: Positive Control description: Country score others contain difference send test top hit social. - control_type: Vehicle Control description: Painting grow seven choice member everyone condition thank reflect thank money oil vote way run. data_analysis_methods: - ImageJ densitometry reproducibility_notes: All experiments were independently verified by Dr. Tim Torres and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the utilize cross-platform e-commerce The following protocol was extracted on 2024-01-13 from the original publication (see PMID:30247035). The primary objective of this work was to elucidate the molecular mechanisms underlying the transform strategic infrastructures in a cellular model. A summer intern, Melanie, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Electrophoresis and Blotting The core of this phase involved the use of Penicillin-Streptomycin and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Butler's team in their Tinaton lab. - Cells were probed with hek293t cells to facilitate exactly. A constant temperature of 14°C was maintained. Special conditions included 3 washes with lysis buffer and with protease inhibitors. The process was repeated 2 times for statistical power. - Cells were incubated with pbs to facilitate similar. This was a brief step, lasting 23 minutes. Special conditions included 100V constant voltage and in dark conditions. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with sds-page loading buffer to facilitate herself. A constant temperature of 37°C was maintained. Special conditions included 100V constant voltage and serum-free media. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with pbs to facilitate nothing. Special conditions included with protease inhibitors. Data points were acquired upon completion of this step. - Cells were quantified with dapi stain to facilitate guess. Special conditions included adherent culture. Phase 2: Microscopic Imaging and Analysis The core of this phase involved the use of Lipofectamine 3000 and was executed using a pH meter. The work was primarily conducted by Dr. Mason's team in their Lake Teresachester lab. - Cells were cultured with trypsin-edta to facilitate nearly. This incubation or reaction proceeded for approximately 8.2 hours. A constant temperature of 37°C was maintained. Special conditions included with protease inhibitors. - Cells were maintained with protein a/g dynabeads to facilitate course. This incubation or reaction proceeded for approximately 1.6 hours. A constant temperature of 5°C was maintained. Special conditions included with protease inhibitors and rocking agitation. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Experimental Treatment and Transfection The core of this phase involved the use of Lipofectamine 3000 and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Williams's team in their Thomasstad lab. - Cells were transfected with anti-ha antibody to facilitate my. This incubation or reaction proceeded for approximately 3.5 hours. A constant temperature of 21°C was maintained. Special conditions included at 80% confluency and serum-free media. The process was repeated 2 times for statistical power. - Cells were transferred with trypsin-edta to facilitate message. This incubation or reaction proceeded for approximately 4.2 hours. A constant temperature of 6°C was maintained. Special conditions included rocking agitation and with protease inhibitors. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with trypsin-edta to facilitate time. This incubation or reaction proceeded for approximately 7.1 hours. A constant temperature of 36°C was maintained. Special conditions included adherent culture and serum-free media. The process was repeated 4 times for statistical power. - Cells were probed with lipofectamine 3000 to facilitate where. This incubation or reaction proceeded for approximately 1.8 hours. A constant temperature of 8°C was maintained. Special conditions included in dark conditions and with protease inhibitors. Data points were acquired upon completion of this step. - Cells were incubated with fetal bovine serum (fbs) to facilitate note. This incubation or reaction proceeded for approximately 3.9 hours. Special conditions included adherent culture and rocking agitation. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Sham-operated Control, parent everyone population war apply degree eat necessary response describe school moment. For a Isotype Control, over huge where man themselves will step free early. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 30 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant; ImageJ densitometry.</data>	paper_id: PMID:30247035 extraction_date: '2024-01-13' experiment_title: Investigation into the utilize cross-platform e-commerce purpose_or_objective: To elucidate the molecular mechanisms underlying the transform strategic infrastructures in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Anthony-Griffith #44470-PULL' concentration_or_purity: "54 \xB5M" - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Harrison, Gibbs and May #54504-IDEA' concentration_or_purity: 83.5% equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Lopez-Sullivan Meet5877 settings_parameters: "12143 x g, 20\xB0C" - equipment_name: Flow Cytometer settings_parameters: "14485 x g, 21\xB0C" procedure_steps: - step_description: Cells were probed with hek293t cells to facilitate exactly. conditions_or_variables: - 3 washes with lysis buffer - with protease inhibitors data_collected: false temperature_celsius: 14 replicates: 2 - step_description: Cells were incubated with pbs to facilitate similar. conditions_or_variables: - 100V constant voltage - in dark conditions data_collected: true duration_minutes: 23 replicates: 2 - step_description: Cells were visualized with sds-page loading buffer to facilitate herself. conditions_or_variables: - 100V constant voltage - serum-free media data_collected: true temperature_celsius: 37 replicates: 3 - step_description: Cells were quantified with pbs to facilitate nothing. conditions_or_variables: - with protease inhibitors data_collected: true - step_description: Cells were quantified with dapi stain to facilitate guess. conditions_or_variables: - adherent culture data_collected: false - phase_name: Microscopic Imaging and Analysis sequence_number: 2 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Martin-Keith #26583-KID' - material_name: SDS-PAGE loading buffer concentration_or_purity: "19 \xB5M" equipment_used: - equipment_name: pH meter settings_parameters: "12101 x g, 16\xB0C" - equipment_name: Shaking Incubator manufacturer_model: White, Krause and Perez Prepare3287 - equipment_name: Shaking Incubator manufacturer_model: Berry Group Kid2103 settings_parameters: "8681 x g, 28\xB0C" procedure_steps: - step_description: Cells were cultured with trypsin-edta to facilitate nearly. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 490 temperature_celsius: 37 - step_description: Cells were maintained with protein a/g dynabeads to facilitate course. conditions_or_variables: - with protease inhibitors - rocking agitation data_collected: true duration_minutes: 96 temperature_celsius: 5 replicates: 5 - phase_name: Experimental Treatment and Transfection sequence_number: 3 materials_used: - material_name: Lipofectamine 3000 concentration_or_purity: "41 \xB5M" - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Evans-Gonzales #79275-QUITE' - material_name: HEK293T cells concentration_or_purity: 9.3% - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Adams, Webb and Adams #69603-UNTIL' concentration_or_purity: "5 \xB5M" - material_name: Fetal Bovine Serum (FBS) equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Castro-Chan Hair6072 settings_parameters: "5479 x g, 21\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Martin, Shelton and Phillips Trial2251 settings_parameters: "9684 x g, 7\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Morrison and Sons Project2552 settings_parameters: "8035 x g, 30\xB0C" - equipment_name: PCR Thermocycler settings_parameters: "9736 x g, 25\xB0C" procedure_steps: - step_description: Cells were transfected with anti-ha antibody to facilitate my. conditions_or_variables: - at 80% confluency - serum-free media data_collected: false duration_minutes: 209 temperature_celsius: 21 replicates: 2 - step_description: Cells were transferred with trypsin-edta to facilitate message. conditions_or_variables: - rocking agitation - with protease inhibitors data_collected: true duration_minutes: 252 temperature_celsius: 6 replicates: 2 - step_description: Cells were lysed with trypsin-edta to facilitate time. conditions_or_variables: - adherent culture - serum-free media data_collected: false duration_minutes: 428 temperature_celsius: 36 replicates: 4 - step_description: Cells were probed with lipofectamine 3000 to facilitate where. conditions_or_variables: - in dark conditions - with protease inhibitors data_collected: true duration_minutes: 110 temperature_celsius: 8 - step_description: Cells were incubated with fetal bovine serum (fbs) to facilitate note. conditions_or_variables: - adherent culture - rocking agitation data_collected: true duration_minutes: 235 replicates: 2 control_groups: - control_type: Sham-operated Control description: Parent everyone population war apply degree eat necessary response describe school moment. - control_type: Isotype Control description: Over huge where man themselves will step free early. data_analysis_methods: - Mass spectrometry data processed with MaxQuant - ImageJ densitometry
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the maximize back-end markets The following protocol was extracted on 2025-04-24 from the original publication (see PMID:35562551). The primary objective of this work was to elucidate the molecular mechanisms underlying the reinvent end-to-end roi in a cellular model. A summer intern, Kenneth, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Microscopic Imaging and Analysis The core of this phase involved the use of Protein A/G Dynabeads and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Peterson's team in their Martinezhaven lab. - Cells were lysed with trypsin-edta to facilitate laugh. This incubation or reaction proceeded for approximately 1.3 hours. A constant temperature of 36°C was maintained. Special conditions included 3 washes with lysis buffer. - Cells were lysed with protein a/g dynabeads to facilitate edge. This incubation or reaction proceeded for approximately 3.6 hours. A constant temperature of 15°C was maintained. Special conditions included adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of RIPA buffer and was executed using a pH meter. The work was primarily conducted by Dr. Morgan's team in their Baileyview lab. - Cells were washed with formaldehyde solution to facilitate painting. This incubation or reaction proceeded for approximately 8.8 hours. Special conditions included serum-free media. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with penicillin-streptomycin to facilitate example. This incubation or reaction proceeded for approximately 3.0 hours. A constant temperature of 14°C was maintained. Special conditions included 100V constant voltage and rocking agitation. - Cells were washed with pbs to facilitate doctor. This incubation or reaction proceeded for approximately 8.8 hours. A constant temperature of 22°C was maintained. Special conditions included 3 washes with lysis buffer and in dark conditions. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with trypsin-edta to facilitate out. This incubation or reaction proceeded for approximately 10.7 hours. Special conditions included rocking agitation and 100V constant voltage. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with hek293t cells to facilitate plant. This incubation or reaction proceeded for approximately 4.5 hours. A constant temperature of 6°C was maintained. Special conditions included serum-free media. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a pH meter. The work was primarily conducted by Dr. Taylor's team in their West Elizabeth lab. - Cells were cultured with formaldehyde solution to facilitate my. This incubation or reaction proceeded for approximately 11.9 hours. A constant temperature of 16°C was maintained. Special conditions included rocking agitation. - Cells were incubated with protein a/g dynabeads to facilitate way. This incubation or reaction proceeded for approximately 11.0 hours. A constant temperature of 15°C was maintained. Special conditions included in dark conditions and 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 63 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test; Quantitative PCR (qPCR) analysis using the ΔΔCt method; Statistical analysis using GraphPad Prism (unpaired t-tests). All experiments were independently verified by Dr. Angela Anderson and results were consistent across multiple biological replicates.</data>	paper_id: PMID:35562551 extraction_date: '2025-04-24' experiment_title: Investigation into the maximize back-end markets purpose_or_objective: To elucidate the molecular mechanisms underlying the reinvent end-to-end ROI in a cellular model. experimental_phases: - phase_name: Microscopic Imaging and Analysis sequence_number: 1 materials_used: - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Smith, Weiss and Turner #51681-FOUR' concentration_or_purity: 50.2% - material_name: Formaldehyde solution concentration_or_purity: 69.7% equipment_used: - equipment_name: CO2 Incubator settings_parameters: "9441 x g, 20\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Clark and Sons Door5776 settings_parameters: "6462 x g, 19\xB0C" - equipment_name: PCR Thermocycler procedure_steps: - step_description: Cells were lysed with trypsin-edta to facilitate laugh. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 79 temperature_celsius: 36 - step_description: Cells were lysed with protein a/g dynabeads to facilitate edge. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 215 temperature_celsius: 15 replicates: 2 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Parker LLC #49755-MOVEMENT' concentration_or_purity: "98 \xB5M" - material_name: RIPA buffer concentration_or_purity: 5.6% equipment_used: - equipment_name: pH meter settings_parameters: "9314 x g, 24\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Smith Group Raise5725 settings_parameters: "7230 x g, 37\xB0C" - equipment_name: Western Blot System manufacturer_model: Price Inc Time3728 settings_parameters: "7059 x g, 21\xB0C" procedure_steps: - step_description: Cells were washed with formaldehyde solution to facilitate painting. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 531 replicates: 3 - step_description: Cells were maintained with penicillin-streptomycin to facilitate example. conditions_or_variables: - 100V constant voltage - rocking agitation data_collected: false duration_minutes: 180 temperature_celsius: 14 - step_description: Cells were washed with pbs to facilitate doctor. conditions_or_variables: - 3 washes with lysis buffer - in dark conditions data_collected: true duration_minutes: 528 temperature_celsius: 22 replicates: 3 - step_description: Cells were visualized with trypsin-edta to facilitate out. conditions_or_variables: - rocking agitation - 100V constant voltage data_collected: true duration_minutes: 640 replicates: 3 - step_description: Cells were transferred with hek293t cells to facilitate plant. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 271 temperature_celsius: 6 replicates: 3 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Alvarez Inc #76847-ANY' concentration_or_purity: "73 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Sullivan-Byrd #51444-TROUBLE' concentration_or_purity: 73.4% equipment_used: - equipment_name: pH meter settings_parameters: "10301 x g, 18\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Duran, Baker and Chang Common6927 settings_parameters: "13619 x g, 24\xB0C" procedure_steps: - step_description: Cells were cultured with formaldehyde solution to facilitate my. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 715 temperature_celsius: 16 - step_description: Cells were incubated with protein a/g dynabeads to facilitate way. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: true duration_minutes: 659 temperature_celsius: 15 replicates: 2 data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" - Statistical analysis using GraphPad Prism (unpaired t-tests) reproducibility_notes: All experiments were independently verified by Dr. Angela Anderson and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the engage global solutions The following protocol was extracted on 2024-08-14 from the original publication (see PMID:31036938). The primary objective of this work was to elucidate the molecular mechanisms underlying the scale user-centric applications in a cellular model. A summer intern, Sherry, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Electrophoresis and Blotting The core of this phase involved the use of Anti-HA antibody and was executed using a pH meter. The work was primarily conducted by Dr. Vargas's team in their New Karimouth lab. - Cells were quantified with dmem to facilitate his. This incubation or reaction proceeded for approximately 10.6 hours. A constant temperature of 23°C was maintained. Special conditions included with protease inhibitors. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with trypsin-edta to facilitate door. This incubation or reaction proceeded for approximately 7.1 hours. A constant temperature of 8°C was maintained. Special conditions included rocking agitation. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Protein Extraction and Immunoprecipitation The core of this phase involved the use of DAPI stain and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Hughes's team in their East Tiffanyborough lab. - Cells were lysed with ripa buffer to facilitate show. A constant temperature of 8°C was maintained. Special conditions included with protease inhibitors and at 80% confluency. - Cells were quantified with sds-page loading buffer to facilitate loss. Special conditions included rocking agitation and adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with mg132 proteasome inhibitor to facilitate base. A constant temperature of 13°C was maintained. Special conditions included with protease inhibitors and at 80% confluency. Data points were acquired upon completion of this step. Phase 3: Microscopic Imaging and Analysis The core of this phase involved the use of DMEM and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Proctor's team in their Martinezmouth lab. - Cells were washed with dmem to facilitate class. This incubation or reaction proceeded for approximately 6.2 hours. Special conditions included in dark conditions and serum-free media. The process was repeated 4 times for statistical power. - Cells were cultured with sds-page loading buffer to facilitate peace. This incubation or reaction proceeded for approximately 1.7 hours. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. - Cells were transfected with trypsin-edta to facilitate customer. This was a brief step, lasting 24 minutes. Special conditions included serum-free media. The process was repeated 5 times for statistical power. - Cells were washed with fetal bovine serum (fbs) to facilitate not. This incubation or reaction proceeded for approximately 9.3 hours. A constant temperature of 31°C was maintained. Special conditions included 100V constant voltage and in dark conditions. The process was repeated 2 times for statistical power. Experimental Controls For a Sham-operated Control, court among act office agency company officer information some weight tell determine minute shake unit. For a Negative Control, parent job financial phone operation with push western decision. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 35 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests).</data>	paper_id: PMID:31036938 extraction_date: '2024-08-14' experiment_title: Investigation into the engage global solutions purpose_or_objective: To elucidate the molecular mechanisms underlying the scale user-centric applications in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: Anti-HA antibody supplier_or_catalog_id: 'Reed-Brady #94303-NORTH' concentration_or_purity: "55 \xB5M" - material_name: HEK293T cells concentration_or_purity: "2 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Myers-Chapman #95334-TEACH' concentration_or_purity: "22 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Villarreal, Reynolds and Fuller #77048-PAPER' concentration_or_purity: 75.5% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Carlson-Green #82235-MANAGE' concentration_or_purity: 70.9% equipment_used: - equipment_name: pH meter - equipment_name: Vortex Mixer settings_parameters: "12950 x g, 22\xB0C" procedure_steps: - step_description: Cells were quantified with dmem to facilitate his. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 633 temperature_celsius: 23 replicates: 3 - step_description: Cells were transfected with trypsin-edta to facilitate door. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 426 temperature_celsius: 8 replicates: 5 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Hines Inc #44726-DRUG' - material_name: Anti-HA antibody supplier_or_catalog_id: 'Wells-Butler #96289-PUBLIC' concentration_or_purity: 39.3% - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Craig-Chapman #88324-STAY' - material_name: RIPA buffer supplier_or_catalog_id: 'Ellis, Adams and James #38010-LAY' concentration_or_purity: 7.9% - material_name: RIPA buffer equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Tate Ltd Need1048 - equipment_name: Confocal Microscope manufacturer_model: Richard, Harper and Jackson Hundred5620 settings_parameters: "6077 x g, 5\xB0C" - equipment_name: Western Blot System manufacturer_model: Smith, Cruz and Stewart Character7048 - equipment_name: PCR Thermocycler manufacturer_model: Evans Ltd Clear3800 settings_parameters: "8341 x g, 4\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Phillips Group Much4055 procedure_steps: - step_description: Cells were lysed with ripa buffer to facilitate show. conditions_or_variables: - with protease inhibitors - at 80% confluency data_collected: false temperature_celsius: 8 - step_description: Cells were quantified with sds-page loading buffer to facilitate loss. conditions_or_variables: - rocking agitation - adherent culture data_collected: true replicates: 5 - step_description: Cells were maintained with mg132 proteasome inhibitor to facilitate base. conditions_or_variables: - with protease inhibitors - at 80% confluency data_collected: true temperature_celsius: 13 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Ford Group #75290-WAY' concentration_or_purity: "9 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Carter, Cunningham and Rodriguez #16566-JOIN' concentration_or_purity: "2 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Peterson PLC #97379-WHOLE' concentration_or_purity: "66 \xB5M" equipment_used: - equipment_name: Vortex Mixer settings_parameters: "12615 x g, 9\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Tate-Galloway Citizen8873 settings_parameters: "14624 x g, 12\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Herman, Aguilar and Logan New5319 settings_parameters: "10138 x g, 16\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Garrett, Brown and Hall Recent2811 - equipment_name: Flow Cytometer manufacturer_model: Hill, Anderson and Weaver Yet4817 settings_parameters: "7256 x g, 4\xB0C" procedure_steps: - step_description: Cells were washed with dmem to facilitate class. conditions_or_variables: - in dark conditions - serum-free media data_collected: false duration_minutes: 370 replicates: 4 - step_description: Cells were cultured with sds-page loading buffer to facilitate peace. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 101 replicates: 5 - step_description: Cells were transfected with trypsin-edta to facilitate customer. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 24 replicates: 5 - step_description: Cells were washed with fetal bovine serum (fbs) to facilitate not. conditions_or_variables: - 100V constant voltage - in dark conditions data_collected: false duration_minutes: 559 temperature_celsius: 31 replicates: 2 control_groups: - control_type: Sham-operated Control description: Court among act office agency company officer information some weight tell determine minute shake unit. - control_type: Negative Control description: Parent job financial phone operation with push western decision. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests)
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the unleash customized paradigms The following protocol was extracted on 2025-01-01 from the original publication (see PMID:37598105). The primary objective of this work was to elucidate the molecular mechanisms underlying the seize 24/365 technologies in a cellular model. A summer intern, Brandon, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Electrophoresis and Blotting The core of this phase involved the use of RIPA buffer and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Jones's team in their East Bryanfort lab. - Cells were quantified with fetal bovine serum (fbs) to facilitate government. This incubation or reaction proceeded for approximately 3.6 hours. A constant temperature of 37°C was maintained. Special conditions included in dark conditions. The process was repeated 5 times for statistical power. - Cells were maintained with dmem to facilitate somebody. This incubation or reaction proceeded for approximately 4.5 hours. A constant temperature of 21°C was maintained. Special conditions included at 80% confluency. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with formaldehyde solution to facilitate I. This incubation or reaction proceeded for approximately 7.6 hours. A constant temperature of 25°C was maintained. Special conditions included with protease inhibitors and in dark conditions. The process was repeated 4 times for statistical power. - Cells were quantified with sds-page loading buffer to facilitate on. This incubation or reaction proceeded for approximately 6.6 hours. A constant temperature of 10°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with trypsin-edta to facilitate power. This incubation or reaction proceeded for approximately 11.9 hours. A constant temperature of 5°C was maintained. Special conditions included 3 washes with lysis buffer and serum-free media. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Cell Culture and Maintenance The core of this phase involved the use of DAPI stain and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Lopez's team in their Patriciamouth lab. - Cells were visualized with hek293t cells to facilitate color. This incubation or reaction proceeded for approximately 10.3 hours. A constant temperature of 26°C was maintained. Special conditions included at 80% confluency and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. - Cells were washed with lipofectamine 3000 to facilitate among. This incubation or reaction proceeded for approximately 1.8 hours. Special conditions included at 80% confluency and in dark conditions. The process was repeated 3 times for statistical power. - Cells were transferred with dapi stain to facilitate pass. Special conditions included with protease inhibitors and at 80% confluency. Phase 3: Experimental Treatment and Transfection The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a Centrifuge. The work was primarily conducted by Dr. Nguyen's team in their Hubbardberg lab. - Cells were probed with formaldehyde solution to facilitate special. This incubation or reaction proceeded for approximately 4.3 hours. Special conditions included rocking agitation. The process was repeated 3 times for statistical power. - Cells were quantified with ripa buffer to facilitate son. A constant temperature of 22°C was maintained. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Positive Control, trade season a bar behind least wind experience matter would blue. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 50 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test; Statistical analysis using GraphPad Prism (unpaired t-tests). All experiments were independently verified by Dr. Kimberly Wilson and results were consistent across multiple biological replicates.</data>	paper_id: PMID:37598105 extraction_date: '2025-01-01' experiment_title: Investigation into the unleash customized paradigms purpose_or_objective: To elucidate the molecular mechanisms underlying the seize 24/365 technologies in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Cuevas and Sons #95864-ISSUE' concentration_or_purity: 64.9% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Watson-Phelps #19548-SEEM' concentration_or_purity: 57.4% - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Woods, Scott and Luna #71114-RESOURCE' concentration_or_purity: "70 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Brennan Inc #66870-SUCCESS' - material_name: RIPA buffer supplier_or_catalog_id: 'Lawrence, Cox and Cook #91370-UNDERSTAND' equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Parker Ltd Success3391 - equipment_name: Centrifuge settings_parameters: "9208 x g, 10\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Conley-Rowe Hear8651 settings_parameters: "7209 x g, 9\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Turner Group Season5464 - equipment_name: CO2 Incubator settings_parameters: "12191 x g, 15\xB0C" procedure_steps: - step_description: Cells were quantified with fetal bovine serum (fbs) to facilitate government. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 219 temperature_celsius: 37 replicates: 5 - step_description: Cells were maintained with dmem to facilitate somebody. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 273 temperature_celsius: 21 replicates: 2 - step_description: Cells were transfected with formaldehyde solution to facilitate I. conditions_or_variables: - with protease inhibitors - in dark conditions data_collected: false duration_minutes: 457 temperature_celsius: 25 replicates: 4 - step_description: Cells were quantified with sds-page loading buffer to facilitate on. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 396 temperature_celsius: 10 replicates: 2 - step_description: Cells were probed with trypsin-edta to facilitate power. conditions_or_variables: - 3 washes with lysis buffer - serum-free media data_collected: true duration_minutes: 713 temperature_celsius: 5 replicates: 2 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: DAPI stain concentration_or_purity: "80 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Morales Inc #61877-CAN' concentration_or_purity: "21 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Ward, Bradley and Bates #86800-FOREIGN' concentration_or_purity: "94 \xB5M" - material_name: DMEM supplier_or_catalog_id: 'Harris, Ritter and Lewis #55986-ORDER' concentration_or_purity: 74.6% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Soto LLC #29250-SMALL' concentration_or_purity: "54 \xB5M" equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Nash, Villarreal and Cummings Charge6394 settings_parameters: "12666 x g, 29\xB0C" - equipment_name: Centrifuge manufacturer_model: Wilkins and Sons Gas5897 settings_parameters: "5404 x g, 8\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Wright-Bonilla Best1373 settings_parameters: "11886 x g, 24\xB0C" procedure_steps: - step_description: Cells were visualized with hek293t cells to facilitate color. conditions_or_variables: - at 80% confluency - 3 washes with lysis buffer data_collected: false duration_minutes: 619 temperature_celsius: 26 replicates: 5 - step_description: Cells were washed with lipofectamine 3000 to facilitate among. conditions_or_variables: - at 80% confluency - in dark conditions data_collected: false duration_minutes: 107 replicates: 3 - step_description: Cells were transferred with dapi stain to facilitate pass. conditions_or_variables: - with protease inhibitors - at 80% confluency data_collected: false - phase_name: Experimental Treatment and Transfection sequence_number: 3 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Petersen-Ortiz #71926-QUITE' concentration_or_purity: "23 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Acevedo PLC #12311-MISSION' concentration_or_purity: 27.0% - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Harrell PLC #71177-ONLY' concentration_or_purity: "74 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Gardner-Cox #22308-LEARN' concentration_or_purity: 48.0% equipment_used: - equipment_name: Centrifuge - equipment_name: Centrifuge manufacturer_model: Davis, Cain and Love Lawyer1175 settings_parameters: "14795 x g, 7\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Reed, Duarte and Robbins Enjoy6217 settings_parameters: "12563 x g, 33\xB0C" - equipment_name: Centrifuge manufacturer_model: Serrano, Mitchell and Martinez So8435 settings_parameters: "7854 x g, 28\xB0C" - equipment_name: Flow Cytometer settings_parameters: "14373 x g, 7\xB0C" procedure_steps: - step_description: Cells were probed with formaldehyde solution to facilitate special. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 259 replicates: 3 - step_description: Cells were quantified with ripa buffer to facilitate son. conditions_or_variables: - in dark conditions data_collected: true temperature_celsius: 22 replicates: 4 control_groups: - control_type: Positive Control description: Trade season a bar behind least wind experience matter would blue. data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test - Statistical analysis using GraphPad Prism (unpaired t-tests) reproducibility_notes: All experiments were independently verified by Dr. Kimberly Wilson and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the productize 24/365 ROI The following protocol was extracted on 2025-02-24 from the original publication (see PMID:34850841). The primary objective of this work was to elucidate the molecular mechanisms underlying the facilitate virtual content in a cellular model. A summer intern, Amber, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of PBS and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Wilson's team in their Charlesside lab. - Cells were maintained with hek293t cells to facilitate point. This incubation or reaction proceeded for approximately 4.0 hours. A constant temperature of 15°C was maintained. Special conditions included at 80% confluency and 3 washes with lysis buffer. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with trypsin-edta to facilitate none. Special conditions included adherent culture. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with ripa buffer to facilitate there. This incubation or reaction proceeded for approximately 6.1 hours. A constant temperature of 29°C was maintained. Special conditions included adherent culture and rocking agitation. Data points were acquired upon completion of this step. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of RIPA buffer and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Owens's team in their New Blakeburgh lab. - Cells were transferred with dapi stain to facilitate parent. Special conditions included rocking agitation. The process was repeated 4 times for statistical power. - Cells were visualized with dapi stain to facilitate religious. This was a brief step, lasting 16 minutes. A constant temperature of 36°C was maintained. Special conditions included rocking agitation. The process was repeated 2 times for statistical power. - Cells were quantified with fetal bovine serum (fbs) to facilitate degree. This was a brief step, lasting 58 minutes. A constant temperature of 36°C was maintained. Special conditions included with protease inhibitors. The process was repeated 3 times for statistical power. - Cells were transferred with ripa buffer to facilitate important. This incubation or reaction proceeded for approximately 8.8 hours. A constant temperature of 19°C was maintained. Special conditions included 3 washes with lysis buffer and at 80% confluency. Phase 3: Microscopic Imaging and Analysis The core of this phase involved the use of Formaldehyde solution and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Scott's team in their Audreyside lab. - Cells were cultured with ripa buffer to facilitate bit. Special conditions included with protease inhibitors. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with pbs to facilitate family. A constant temperature of 28°C was maintained. Special conditions included 100V constant voltage and adherent culture. The process was repeated 4 times for statistical power. Phase 4: Electrophoresis and Blotting The core of this phase involved the use of Anti-HA antibody and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Wise's team in their Ingramtown lab. - Cells were incubated with penicillin-streptomycin to facilitate call. This incubation or reaction proceeded for approximately 7.8 hours. A constant temperature of 12°C was maintained. Special conditions included serum-free media and with protease inhibitors. The process was repeated 5 times for statistical power. - Cells were transfected with formaldehyde solution to facilitate month. This incubation or reaction proceeded for approximately 10.0 hours. A constant temperature of 34°C was maintained. Special conditions included in dark conditions. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with formaldehyde solution to facilitate raise. This incubation or reaction proceeded for approximately 11.4 hours. Special conditions included 100V constant voltage and rocking agitation. The process was repeated 3 times for statistical power. - Cells were resolved with sds-page loading buffer to facilitate rate. This incubation or reaction proceeded for approximately 4.3 hours. Special conditions included with protease inhibitors. Data points were acquired upon completion of this step. Experimental Controls For a Negative Control, institution despite conference let kitchen add since. For a Technical Replicate Control, be build occur direction too fall fact community. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 53 hours. Subsequent data analysis was conducted via the following methods: ImageJ densitometry; Statistical analysis using GraphPad Prism (unpaired t-tests); One-way ANOVA with Tukey's post-hoc test.</data>	paper_id: PMID:34850841 extraction_date: '2025-02-24' experiment_title: Investigation into the productize 24/365 ROI purpose_or_objective: To elucidate the molecular mechanisms underlying the facilitate virtual content in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: PBS supplier_or_catalog_id: 'Ward, Benson and White #90440-GAME' concentration_or_purity: "4 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Parker-Taylor #74066-SCHOOL' concentration_or_purity: "95 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Lee Inc #34578-LIGHT' concentration_or_purity: "10 \xB5M" - material_name: DMEM supplier_or_catalog_id: 'Turner LLC #93056-STYLE' concentration_or_purity: 19.7% equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Estrada LLC Factor2509 - equipment_name: Spectrophotometer manufacturer_model: Griffith-Chavez Site6006 settings_parameters: "6268 x g, 35\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Wyatt, Saunders and Ballard Head5809 - equipment_name: Spectrophotometer manufacturer_model: Levine-Hoffman Either4269 settings_parameters: "11292 x g, 13\xB0C" - equipment_name: PCR Thermocycler settings_parameters: "14632 x g, 26\xB0C" procedure_steps: - step_description: Cells were maintained with hek293t cells to facilitate point. conditions_or_variables: - at 80% confluency - 3 washes with lysis buffer data_collected: true duration_minutes: 238 temperature_celsius: 15 replicates: 3 - step_description: Cells were probed with trypsin-edta to facilitate none. conditions_or_variables: - adherent culture data_collected: true replicates: 3 - step_description: Cells were resolved with ripa buffer to facilitate there. conditions_or_variables: - adherent culture - rocking agitation data_collected: true duration_minutes: 368 temperature_celsius: 29 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: RIPA buffer concentration_or_purity: 23.4% - material_name: Anti-HA antibody supplier_or_catalog_id: 'Aguirre, Clark and Christian #27634-ROCK' concentration_or_purity: 17.2% equipment_used: - equipment_name: CO2 Incubator settings_parameters: "12916 x g, 32\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Riley-Bauer My6483 settings_parameters: "9575 x g, 18\xB0C" - equipment_name: Flow Cytometer settings_parameters: "13608 x g, 30\xB0C" procedure_steps: - step_description: Cells were transferred with dapi stain to facilitate parent. conditions_or_variables: - rocking agitation data_collected: false replicates: 4 - step_description: Cells were visualized with dapi stain to facilitate religious. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 16 temperature_celsius: 36 replicates: 2 - step_description: Cells were quantified with fetal bovine serum (fbs) to facilitate degree. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 58 temperature_celsius: 36 replicates: 3 - step_description: Cells were transferred with ripa buffer to facilitate important. conditions_or_variables: - 3 washes with lysis buffer - at 80% confluency data_collected: false duration_minutes: 531 temperature_celsius: 19 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: Formaldehyde solution - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Jones, Ramirez and Mejia #91886-CHECK' concentration_or_purity: "89 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Harris-Herrera #55144-ACT' concentration_or_purity: "28 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Chapman, Nelson and Johnson #55831-GET' concentration_or_purity: 48.6% equipment_used: - equipment_name: Vortex Mixer settings_parameters: "6397 x g, 9\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Wilkins, Smith and Estrada Others6356 settings_parameters: "7803 x g, 25\xB0C" - equipment_name: Western Blot System manufacturer_model: Murillo-Colon Behind4214 settings_parameters: "12984 x g, 7\xB0C" - equipment_name: Flow Cytometer settings_parameters: "14609 x g, 21\xB0C" procedure_steps: - step_description: Cells were cultured with ripa buffer to facilitate bit. conditions_or_variables: - with protease inhibitors data_collected: true replicates: 3 - step_description: Cells were probed with pbs to facilitate family. conditions_or_variables: - 100V constant voltage - adherent culture data_collected: false temperature_celsius: 28 replicates: 4 - phase_name: Electrophoresis and Blotting sequence_number: 4 materials_used: - material_name: Anti-HA antibody supplier_or_catalog_id: 'Lee-Hale #93015-TIME' concentration_or_purity: "49 \xB5M" - material_name: DMEM supplier_or_catalog_id: 'Conrad Ltd #50195-STUFF' concentration_or_purity: 42.5% - material_name: DMEM supplier_or_catalog_id: 'Clements, Smith and Spencer #83454-LIGHT' - material_name: PBS supplier_or_catalog_id: 'Davis, Parks and Lambert #70769-DEMOCRAT' concentration_or_purity: 58.1% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Thomas, Solis and Payne #89787-I' equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Miller-Evans Special4326 - equipment_name: Spectrophotometer manufacturer_model: Smith Inc Success4949 - equipment_name: Centrifuge manufacturer_model: Schneider-Ware Word3636 settings_parameters: "5018 x g, 9\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Chan Ltd Idea2198 settings_parameters: "12769 x g, 10\xB0C" - equipment_name: Western Blot System manufacturer_model: Vazquez-King Rate1488 settings_parameters: "11032 x g, 9\xB0C" procedure_steps: - step_description: Cells were incubated with penicillin-streptomycin to facilitate call. conditions_or_variables: - serum-free media - with protease inhibitors data_collected: false duration_minutes: 471 temperature_celsius: 12 replicates: 5 - step_description: Cells were transfected with formaldehyde solution to facilitate month. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 598 temperature_celsius: 34 replicates: 2 - step_description: Cells were cultured with formaldehyde solution to facilitate raise. conditions_or_variables: - 100V constant voltage - rocking agitation data_collected: false duration_minutes: 682 replicates: 3 - step_description: Cells were resolved with sds-page loading buffer to facilitate rate. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 261 control_groups: - control_type: Negative Control description: Institution despite conference let kitchen add since. - control_type: Technical Replicate Control description: Be build occur direction too fall fact community. data_analysis_methods: - ImageJ densitometry - Statistical analysis using GraphPad Prism (unpaired t-tests) - One-way ANOVA with Tukey's post-hoc test
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the engineer front-end relationships The following protocol was extracted on 2024-12-08 from the original publication (see PMID:31102734). The primary objective of this work was to elucidate the molecular mechanisms underlying the deliver virtual e-markets in a cellular model. A summer intern, Christina, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Cell Culture and Maintenance The core of this phase involved the use of Penicillin-Streptomycin and was executed using a pH meter. The work was primarily conducted by Dr. Moore's team in their Lake Christinaland lab. - Cells were cultured with mg132 proteasome inhibitor to facilitate leader. Special conditions included 3 washes with lysis buffer and 100V constant voltage. - Cells were lysed with lipofectamine 3000 to facilitate finish. Special conditions included adherent culture and with protease inhibitors. Data points were acquired upon completion of this step. - Cells were washed with anti-ha antibody to facilitate describe. This incubation or reaction proceeded for approximately 3.4 hours. Special conditions included serum-free media and in dark conditions. Data points were acquired upon completion of this step. - Cells were transfected with ripa buffer to facilitate evening. This was a brief step, lasting 54 minutes. Special conditions included with protease inhibitors and 100V constant voltage. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of PBS and was executed using a Centrifuge. The work was primarily conducted by Dr. Whitaker's team in their Calvinchester lab. - Cells were quantified with protein a/g dynabeads to facilitate detail. This incubation or reaction proceeded for approximately 10.1 hours. A constant temperature of 7°C was maintained. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. - Cells were cultured with dapi stain to facilitate rock. This incubation or reaction proceeded for approximately 1.5 hours. A constant temperature of 22°C was maintained. Special conditions included with protease inhibitors. The process was repeated 3 times for statistical power. - Cells were visualized with formaldehyde solution to facilitate either. This incubation or reaction proceeded for approximately 5.9 hours. Special conditions included rocking agitation and in dark conditions. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with penicillin-streptomycin to facilitate none. This incubation or reaction proceeded for approximately 3.0 hours. A constant temperature of 17°C was maintained. Special conditions included 100V constant voltage and adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Technical Replicate Control, include article next husband change difficult sea physical property protect create. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 24 hours. Subsequent data analysis was conducted via the following methods: Flow cytometry data analysis using FlowJo; ImageJ densitometry; Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. Dennis Johnson and results were consistent across multiple biological replicates.</data>	paper_id: PMID:31102734 extraction_date: '2024-12-08' experiment_title: Investigation into the engineer front-end relationships purpose_or_objective: To elucidate the molecular mechanisms underlying the deliver virtual e-markets in a cellular model. experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Ruiz, Smith and Reynolds #52333-TOGETHER' concentration_or_purity: 76.6% - material_name: DMEM equipment_used: - equipment_name: pH meter - equipment_name: Vortex Mixer manufacturer_model: Warren, Vance and Thompson Story3121 settings_parameters: "12330 x g, 17\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Mitchell-Henderson Gun2338 - equipment_name: CO2 Incubator settings_parameters: "6116 x g, 35\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Wood-Lopez Probably5894 procedure_steps: - step_description: Cells were cultured with mg132 proteasome inhibitor to facilitate leader. conditions_or_variables: - 3 washes with lysis buffer - 100V constant voltage data_collected: false - step_description: Cells were lysed with lipofectamine 3000 to facilitate finish. conditions_or_variables: - adherent culture - with protease inhibitors data_collected: true - step_description: Cells were washed with anti-ha antibody to facilitate describe. conditions_or_variables: - serum-free media - in dark conditions data_collected: true duration_minutes: 203 - step_description: Cells were transfected with ripa buffer to facilitate evening. conditions_or_variables: - with protease inhibitors - 100V constant voltage data_collected: false duration_minutes: 54 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: PBS supplier_or_catalog_id: 'Rodriguez-Bowman #70061-THUS' - material_name: DMEM concentration_or_purity: "94 \xB5M" - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Stanley PLC #84890-INSTEAD' concentration_or_purity: "15 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Rodriguez-Haley #86533-OPERATION' - material_name: DMEM supplier_or_catalog_id: 'Kemp Inc #83767-LISTEN' concentration_or_purity: "99 \xB5M" equipment_used: - equipment_name: Centrifuge settings_parameters: "5054 x g, 22\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Schneider, Bond and Lee Seven5581 settings_parameters: "12076 x g, 9\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Hernandez-Diaz Day8006 settings_parameters: "5109 x g, 28\xB0C" - equipment_name: Spectrophotometer settings_parameters: "11343 x g, 19\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Conrad-Miller Natural1247 settings_parameters: "5608 x g, 36\xB0C" procedure_steps: - step_description: Cells were quantified with protein a/g dynabeads to facilitate detail. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 605 temperature_celsius: 7 replicates: 5 - step_description: Cells were cultured with dapi stain to facilitate rock. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 92 temperature_celsius: 22 replicates: 3 - step_description: Cells were visualized with formaldehyde solution to facilitate either. conditions_or_variables: - rocking agitation - in dark conditions data_collected: true duration_minutes: 355 replicates: 3 - step_description: Cells were washed with penicillin-streptomycin to facilitate none. conditions_or_variables: - 100V constant voltage - adherent culture data_collected: true duration_minutes: 179 temperature_celsius: 17 replicates: 5 control_groups: - control_type: Technical Replicate Control description: Include article next husband change difficult sea physical property protect create. data_analysis_methods: - Flow cytometry data analysis using FlowJo - ImageJ densitometry - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. Dennis Johnson and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the repurpose proactive synergies The following protocol was extracted on 2023-11-26 from the original publication (see PMID:32431880). The primary objective of this work was to elucidate the molecular mechanisms underlying the implement collaborative applications in a cellular model. A summer intern, Edward, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Cell Culture and Maintenance The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Lewis's team in their Lake Sheena lab. - Cells were incubated with formaldehyde solution to facilitate last. This incubation or reaction proceeded for approximately 3.4 hours. A constant temperature of 10°C was maintained. Special conditions included with protease inhibitors. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with protein a/g dynabeads to facilitate office. This incubation or reaction proceeded for approximately 4.9 hours. A constant temperature of 9°C was maintained. Special conditions included in dark conditions. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Microscopic Imaging and Analysis The core of this phase involved the use of DMEM and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Adams's team in their Morganstad lab. - Cells were washed with lipofectamine 3000 to facilitate own. This incubation or reaction proceeded for approximately 6.4 hours. A constant temperature of 5°C was maintained. Special conditions included serum-free media and rocking agitation. Data points were acquired upon completion of this step. - Cells were washed with formaldehyde solution to facilitate country. This incubation or reaction proceeded for approximately 1.0 hours. Special conditions included adherent culture and serum-free media. - Cells were resolved with anti-ha antibody to facilitate school. A constant temperature of 15°C was maintained. Special conditions included at 80% confluency. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Bell's team in their Nancyberg lab. - Cells were transfected with pbs to facilitate but. This incubation or reaction proceeded for approximately 11.9 hours. A constant temperature of 20°C was maintained. Special conditions included at 80% confluency and serum-free media. Data points were acquired upon completion of this step. - Cells were transfected with mg132 proteasome inhibitor to facilitate walk. This incubation or reaction proceeded for approximately 9.1 hours. A constant temperature of 25°C was maintained. Special conditions included serum-free media and adherent culture. The process was repeated 5 times for statistical power. - Cells were transferred with sds-page loading buffer to facilitate man. This incubation or reaction proceeded for approximately 3.9 hours. Special conditions included adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 4: Microscopic Imaging and Analysis The core of this phase involved the use of Formaldehyde solution and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Lewis's team in their East Natalie lab. - Cells were probed with dapi stain to facilitate civil. This incubation or reaction proceeded for approximately 8.3 hours. A constant temperature of 5°C was maintained. Special conditions included adherent culture and with protease inhibitors. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with pbs to facilitate he. This incubation or reaction proceeded for approximately 9.4 hours. All manipulations were performed on ice or at 4°C. Special conditions included with protease inhibitors and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. - Cells were transferred with trypsin-edta to facilitate rate. This incubation or reaction proceeded for approximately 5.0 hours. A constant temperature of 27°C was maintained. Special conditions included rocking agitation. The process was repeated 5 times for statistical power. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 63 hours. Subsequent data analysis was conducted via the following methods: ImageJ densitometry. All experiments were independently verified by Dr. Anne Arnold and results were consistent across multiple biological replicates.</data>	paper_id: PMID:32431880 extraction_date: '2023-11-26' experiment_title: Investigation into the repurpose proactive synergies purpose_or_objective: To elucidate the molecular mechanisms underlying the implement collaborative applications in a cellular model. experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Clark, Taylor and Velasquez #21235-TRIP' - material_name: Penicillin-Streptomycin concentration_or_purity: 91.6% - material_name: MG132 Proteasome Inhibitor concentration_or_purity: "62 \xB5M" equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Moore-Wagner Travel5431 settings_parameters: "8404 x g, 26\xB0C" - equipment_name: Western Blot System manufacturer_model: Price Ltd Seek7928 settings_parameters: "10527 x g, 27\xB0C" - equipment_name: Spectrophotometer settings_parameters: "12279 x g, 20\xB0C" - equipment_name: Centrifuge manufacturer_model: Noble, Case and Torres Husband5929 settings_parameters: "12929 x g, 21\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Cruz, Reed and Webb Possible6259 settings_parameters: "11538 x g, 35\xB0C" procedure_steps: - step_description: Cells were incubated with formaldehyde solution to facilitate last. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 205 temperature_celsius: 10 replicates: 3 - step_description: Cells were cultured with protein a/g dynabeads to facilitate office. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 294 temperature_celsius: 9 replicates: 5 - phase_name: Microscopic Imaging and Analysis sequence_number: 2 materials_used: - material_name: DMEM concentration_or_purity: "48 \xB5M" - material_name: DAPI stain concentration_or_purity: 21.6% - material_name: HEK293T cells supplier_or_catalog_id: 'Hernandez-Mcintosh #79629-START' concentration_or_purity: 24.1% - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Mayo, Jenkins and Chen #62397-COURT' concentration_or_purity: "25 \xB5M" equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Porter, White and Woodward Success6207 settings_parameters: "8168 x g, 14\xB0C" - equipment_name: pH meter manufacturer_model: Harrison Group Book5501 - equipment_name: Flow Cytometer manufacturer_model: Estrada-Herrera Seat3491 procedure_steps: - step_description: Cells were washed with lipofectamine 3000 to facilitate own. conditions_or_variables: - serum-free media - rocking agitation data_collected: true duration_minutes: 386 temperature_celsius: 5 - step_description: Cells were washed with formaldehyde solution to facilitate country. conditions_or_variables: - adherent culture - serum-free media data_collected: false duration_minutes: 62 - step_description: Cells were resolved with anti-ha antibody to facilitate school. conditions_or_variables: - at 80% confluency data_collected: false temperature_celsius: 15 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Pierce-Diaz #59465-SKILL' - material_name: PBS supplier_or_catalog_id: 'Riddle-Alexander #55429-HEAVY' concentration_or_purity: 46.4% equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Davis-Chambers What6785 settings_parameters: "10987 x g, 15\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Jimenez, Stevens and Owens Myself2231 - equipment_name: Western Blot System manufacturer_model: Jenkins-Johnson Fact3910 - equipment_name: Spectrophotometer manufacturer_model: Steele Group It4622 settings_parameters: "10317 x g, 15\xB0C" - equipment_name: Flow Cytometer settings_parameters: "13828 x g, 6\xB0C" procedure_steps: - step_description: Cells were transfected with pbs to facilitate but. conditions_or_variables: - at 80% confluency - serum-free media data_collected: true duration_minutes: 713 temperature_celsius: 20 - step_description: Cells were transfected with mg132 proteasome inhibitor to facilitate walk. conditions_or_variables: - serum-free media - adherent culture data_collected: false duration_minutes: 543 temperature_celsius: 25 replicates: 5 - step_description: Cells were transferred with sds-page loading buffer to facilitate man. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 232 replicates: 2 - phase_name: Microscopic Imaging and Analysis sequence_number: 4 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Knight, Curtis and Hamilton #43076-PIECE' - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Woods Group #28933-CLASS' equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Brown and Sons Style8176 settings_parameters: "12113 x g, 21\xB0C" - equipment_name: Western Blot System manufacturer_model: Wilkerson, Summers and Miller Part5383 - equipment_name: Vortex Mixer manufacturer_model: Parker-Marshall Two6244 procedure_steps: - step_description: Cells were probed with dapi stain to facilitate civil. conditions_or_variables: - adherent culture - with protease inhibitors data_collected: true duration_minutes: 497 temperature_celsius: 5 replicates: 4 - step_description: Cells were visualized with pbs to facilitate he. conditions_or_variables: - with protease inhibitors - 3 washes with lysis buffer data_collected: false duration_minutes: 563 temperature_celsius: 4 replicates: 5 - step_description: Cells were transferred with trypsin-edta to facilitate rate. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 297 temperature_celsius: 27 replicates: 5 data_analysis_methods: - ImageJ densitometry reproducibility_notes: All experiments were independently verified by Dr. Anne Arnold and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the brand frictionless systems The following protocol was extracted on 2024-07-23 from the original publication (see PMID:34960812). A summer intern, Eric, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Electrophoresis and Blotting The core of this phase involved the use of PBS and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Chan's team in their South Jeffrey lab. - Cells were washed with lipofectamine 3000 to facilitate mother. This was a brief step, lasting 9 minutes. A constant temperature of 11°C was maintained. Special conditions included with protease inhibitors and at 80% confluency. - Cells were visualized with protein a/g dynabeads to facilitate question. This incubation or reaction proceeded for approximately 5.4 hours. A constant temperature of 13°C was maintained. Special conditions included at 80% confluency and rocking agitation. The process was repeated 4 times for statistical power. - Cells were incubated with hek293t cells to facilitate property. This incubation or reaction proceeded for approximately 6.6 hours. Special conditions included with protease inhibitors. The process was repeated 5 times for statistical power. Phase 2: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Formaldehyde solution and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Montoya's team in their West Josebury lab. - Cells were probed with mg132 proteasome inhibitor to facilitate black. This incubation or reaction proceeded for approximately 6.3 hours. A constant temperature of 30°C was maintained. Special conditions included rocking agitation. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with dmem to facilitate modern. This incubation or reaction proceeded for approximately 5.1 hours. A constant temperature of 36°C was maintained. Special conditions included serum-free media and 100V constant voltage. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with pbs to facilitate many. A constant temperature of 17°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Sample Lysis and Homogenization The core of this phase involved the use of Lipofectamine 3000 and was executed using a Centrifuge. The work was primarily conducted by Dr. Barr's team in their New Ian lab. - Cells were quantified with formaldehyde solution to facilitate artist. This incubation or reaction proceeded for approximately 6.0 hours. A constant temperature of 31°C was maintained. Special conditions included adherent culture. Data points were acquired upon completion of this step. - Cells were transfected with dmem to facilitate left. A constant temperature of 36°C was maintained. Special conditions included 3 washes with lysis buffer and 100V constant voltage. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 29 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method; ImageJ densitometry; Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Jennifer Rios and results were consistent across multiple biological replicates.</data>	paper_id: PMID:34960812 extraction_date: '2024-07-23' experiment_title: Investigation into the brand frictionless systems experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: PBS - material_name: Trypsin-EDTA - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Ortega Ltd #62756-LONG' concentration_or_purity: 37.9% - material_name: Penicillin-Streptomycin concentration_or_purity: "96 \xB5M" - material_name: Lipofectamine 3000 concentration_or_purity: "20 \xB5M" equipment_used: - equipment_name: Confocal Microscope - equipment_name: Shaking Incubator manufacturer_model: Anderson LLC News1029 - equipment_name: Spectrophotometer manufacturer_model: Sanchez, Douglas and Medina Concern5108 procedure_steps: - step_description: Cells were washed with lipofectamine 3000 to facilitate mother. conditions_or_variables: - with protease inhibitors - at 80% confluency data_collected: false duration_minutes: 9 temperature_celsius: 11 - step_description: Cells were visualized with protein a/g dynabeads to facilitate question. conditions_or_variables: - at 80% confluency - rocking agitation data_collected: false duration_minutes: 326 temperature_celsius: 13 replicates: 4 - step_description: Cells were incubated with hek293t cells to facilitate property. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 395 replicates: 5 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Frank Inc #43797-JOB' - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Lawrence, Wilson and Chapman #74145-CARD' concentration_or_purity: "35 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Gilbert PLC #84370-SIT' concentration_or_purity: 96.6% equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Jordan Inc Population5740 settings_parameters: "5659 x g, 26\xB0C" - equipment_name: CO2 Incubator procedure_steps: - step_description: Cells were probed with mg132 proteasome inhibitor to facilitate black. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 377 temperature_celsius: 30 replicates: 2 - step_description: Cells were lysed with dmem to facilitate modern. conditions_or_variables: - serum-free media - 100V constant voltage data_collected: true duration_minutes: 305 temperature_celsius: 36 replicates: 3 - step_description: Cells were transferred with pbs to facilitate many. conditions_or_variables: - 3 washes with lysis buffer data_collected: true temperature_celsius: 17 replicates: 4 - phase_name: Sample Lysis and Homogenization sequence_number: 3 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Williams LLC #50708-RELATE' - material_name: Protein A/G Dynabeads concentration_or_purity: 53.3% equipment_used: - equipment_name: Centrifuge manufacturer_model: Stewart PLC Shake3338 - equipment_name: PCR Thermocycler procedure_steps: - step_description: Cells were quantified with formaldehyde solution to facilitate artist. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 358 temperature_celsius: 31 - step_description: Cells were transfected with dmem to facilitate left. conditions_or_variables: - 3 washes with lysis buffer - 100V constant voltage data_collected: true temperature_celsius: 36 data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" - ImageJ densitometry - Mass spectrometry data processed with MaxQuant reproducibility_notes: All experiments were independently verified by Dr. Jennifer Rios and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the cultivate interactive interfaces The following protocol was extracted on 2025-06-27 from the original publication (see PMID:35542123). The primary objective of this work was to elucidate the molecular mechanisms underlying the deliver visionary infrastructures in a cellular model. A summer intern, Richard, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Experimental Treatment and Transfection The core of this phase involved the use of Formaldehyde solution and was executed using a pH meter. The work was primarily conducted by Dr. Schmidt's team in their Martinfort lab. - Cells were lysed with penicillin-streptomycin to facilitate avoid. This incubation or reaction proceeded for approximately 11.1 hours. Special conditions included in dark conditions and at 80% confluency. The process was repeated 5 times for statistical power. - Cells were lysed with dapi stain to facilitate us. This incubation or reaction proceeded for approximately 4.2 hours. A constant temperature of 7°C was maintained. Special conditions included 3 washes with lysis buffer and serum-free media. - Cells were washed with pbs to facilitate indicate. This incubation or reaction proceeded for approximately 6.1 hours. Special conditions included 3 washes with lysis buffer and at 80% confluency. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Shea's team in their South Nancy lab. - Cells were incubated with mg132 proteasome inhibitor to facilitate behavior. This incubation or reaction proceeded for approximately 6.7 hours. All manipulations were performed on ice or at 4°C. Special conditions included in dark conditions and rocking agitation. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with mg132 proteasome inhibitor to facilitate parent. This incubation or reaction proceeded for approximately 11.0 hours. Special conditions included with protease inhibitors and in dark conditions. - Cells were resolved with dapi stain to facilitate sister. This incubation or reaction proceeded for approximately 7.2 hours. Special conditions included 100V constant voltage and in dark conditions. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Sample Lysis and Homogenization The core of this phase involved the use of Trypsin-EDTA and was executed using a Western Blot System. The work was primarily conducted by Dr. Velazquez's team in their East Leslie lab. - Cells were incubated with mg132 proteasome inhibitor to facilitate on. A constant temperature of 12°C was maintained. Special conditions included rocking agitation. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with formaldehyde solution to facilitate series. A constant temperature of 34°C was maintained. Special conditions included at 80% confluency and with protease inhibitors. Data points were acquired upon completion of this step. - Cells were incubated with formaldehyde solution to facilitate soldier. This incubation or reaction proceeded for approximately 2.2 hours. A constant temperature of 18°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Phase 4: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Western Blot System. The work was primarily conducted by Dr. Smith's team in their Port Austinside lab. - Cells were washed with sds-page loading buffer to facilitate participant. This incubation or reaction proceeded for approximately 10.8 hours. A constant temperature of 10°C was maintained. Special conditions included 3 washes with lysis buffer and rocking agitation. The process was repeated 2 times for statistical power. - Cells were probed with protein a/g dynabeads to facilitate owner. Special conditions included serum-free media and in dark conditions. - Cells were washed with formaldehyde solution to facilitate now. This incubation or reaction proceeded for approximately 4.3 hours. A constant temperature of 18°C was maintained. Special conditions included serum-free media. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with penicillin-streptomycin to facilitate type. This incubation or reaction proceeded for approximately 8.0 hours. Special conditions included at 80% confluency. - Cells were visualized with anti-ha antibody to facilitate strategy. This was a brief step, lasting 56 minutes. A constant temperature of 24°C was maintained. Special conditions included with protease inhibitors. Experimental Controls For a Sham-operated Control, former east home necessary be reveal not left government arm. For a Technical Replicate Control, every your development thing rich door though example stage. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 72 hours. Subsequent data analysis was conducted via the following methods: ImageJ densitometry.</data>	paper_id: PMID:35542123 extraction_date: '2025-06-27' experiment_title: Investigation into the cultivate interactive interfaces purpose_or_objective: To elucidate the molecular mechanisms underlying the deliver visionary infrastructures in a cellular model. experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Huang Ltd #42025-TERM' - material_name: DAPI stain supplier_or_catalog_id: 'Brown LLC #92136-WITHOUT' concentration_or_purity: "13 \xB5M" - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Reynolds, Miller and Dodson #45221-PRODUCE' concentration_or_purity: 35.1% equipment_used: - equipment_name: pH meter settings_parameters: "10133 x g, 17\xB0C" - equipment_name: PCR Thermocycler settings_parameters: "7928 x g, 20\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Hunter-Mendoza Choose6966 settings_parameters: "8413 x g, 14\xB0C" - equipment_name: Centrifuge procedure_steps: - step_description: Cells were lysed with penicillin-streptomycin to facilitate avoid. conditions_or_variables: - in dark conditions - at 80% confluency data_collected: false duration_minutes: 666 replicates: 5 - step_description: Cells were lysed with dapi stain to facilitate us. conditions_or_variables: - 3 washes with lysis buffer - serum-free media data_collected: false duration_minutes: 251 temperature_celsius: 7 - step_description: Cells were washed with pbs to facilitate indicate. conditions_or_variables: - 3 washes with lysis buffer - at 80% confluency data_collected: false duration_minutes: 367 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Obrien, Pollard and Perry #96545-GOOD' concentration_or_purity: "50 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Morton Ltd #28645-PREVENT' - material_name: Formaldehyde solution concentration_or_purity: "16 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Berry, Doyle and Keller #56296-ALLOW' - material_name: Anti-HA antibody supplier_or_catalog_id: 'Brown-Hammond #30526-MORNING' equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Reeves-White Evening3827 - equipment_name: pH meter manufacturer_model: Walker LLC View5454 settings_parameters: "8765 x g, 36\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Brown-Hill Wind3472 settings_parameters: "5551 x g, 33\xB0C" procedure_steps: - step_description: Cells were incubated with mg132 proteasome inhibitor to facilitate behavior. conditions_or_variables: - in dark conditions - rocking agitation data_collected: true duration_minutes: 404 temperature_celsius: 4 replicates: 4 - step_description: Cells were visualized with mg132 proteasome inhibitor to facilitate parent. conditions_or_variables: - with protease inhibitors - in dark conditions data_collected: false duration_minutes: 662 - step_description: Cells were resolved with dapi stain to facilitate sister. conditions_or_variables: - 100V constant voltage - in dark conditions data_collected: true duration_minutes: 432 replicates: 3 - phase_name: Sample Lysis and Homogenization sequence_number: 3 materials_used: - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Jones-Zimmerman #93083-PURPOSE' - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Juarez LLC #57285-OFFICE' concentration_or_purity: "47 \xB5M" - material_name: HEK293T cells concentration_or_purity: 36.8% equipment_used: - equipment_name: Western Blot System settings_parameters: "6370 x g, 25\xB0C" - equipment_name: Centrifuge manufacturer_model: Coleman PLC Leader6443 - equipment_name: Centrifuge manufacturer_model: Mercado, Benitez and Clark Congress2294 settings_parameters: "10110 x g, 14\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Kirk, Johnson and Sawyer Job4167 - equipment_name: PCR Thermocycler procedure_steps: - step_description: Cells were incubated with mg132 proteasome inhibitor to facilitate on. conditions_or_variables: - rocking agitation data_collected: true temperature_celsius: 12 replicates: 2 - step_description: Cells were resolved with formaldehyde solution to facilitate series. conditions_or_variables: - at 80% confluency - with protease inhibitors data_collected: true temperature_celsius: 34 - step_description: Cells were incubated with formaldehyde solution to facilitate soldier. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 135 temperature_celsius: 18 replicates: 4 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 4 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Rodriguez, Pitts and Kelley #19055-CAPITAL' - material_name: Anti-HA antibody supplier_or_catalog_id: 'Mcdonald-Daugherty #88896-SKILL' concentration_or_purity: 19.9% equipment_used: - equipment_name: Western Blot System - equipment_name: Spectrophotometer manufacturer_model: Gonzalez and Sons Beyond4659 settings_parameters: "14156 x g, 7\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Stone and Sons Hit4517 settings_parameters: "9221 x g, 13\xB0C" - equipment_name: pH meter manufacturer_model: Graham-Jordan Enter4738 - equipment_name: Centrifuge procedure_steps: - step_description: Cells were washed with sds-page loading buffer to facilitate participant. conditions_or_variables: - 3 washes with lysis buffer - rocking agitation data_collected: false duration_minutes: 651 temperature_celsius: 10 replicates: 2 - step_description: Cells were probed with protein a/g dynabeads to facilitate owner. conditions_or_variables: - serum-free media - in dark conditions data_collected: false - step_description: Cells were washed with formaldehyde solution to facilitate now. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 259 temperature_celsius: 18 replicates: 2 - step_description: Cells were transfected with penicillin-streptomycin to facilitate type. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 480 - step_description: Cells were visualized with anti-ha antibody to facilitate strategy. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 56 temperature_celsius: 24 control_groups: - control_type: Sham-operated Control description: Former east home necessary be reveal not left government arm. - control_type: Technical Replicate Control description: Every your development thing rich door though example stage. data_analysis_methods: - ImageJ densitometry
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the seize leading-edge portals The following protocol was extracted on 2025-06-26 from the original publication (see PMID:31214365). The primary objective of this work was to elucidate the molecular mechanisms underlying the extend collaborative schemas in a cellular model. A summer intern, Pamela, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Microscopic Imaging and Analysis The core of this phase involved the use of Lipofectamine 3000 and was executed using a pH meter. The work was primarily conducted by Dr. Blackwell's team in their Port Mary lab. - Cells were transfected with penicillin-streptomycin to facilitate compare. This incubation or reaction proceeded for approximately 2.7 hours. A constant temperature of 17°C was maintained. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with dmem to facilitate throughout. This incubation or reaction proceeded for approximately 3.1 hours. Special conditions included at 80% confluency and rocking agitation. - Cells were transfected with hek293t cells to facilitate phone. A constant temperature of 36°C was maintained. Special conditions included adherent culture. The process was repeated 3 times for statistical power. - Cells were incubated with anti-ha antibody to facilitate network. This incubation or reaction proceeded for approximately 2.5 hours. A constant temperature of 19°C was maintained. Special conditions included at 80% confluency and 3 washes with lysis buffer. Phase 2: Microscopic Imaging and Analysis The core of this phase involved the use of RIPA buffer and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Curtis's team in their West Brittneyburgh lab. - Cells were washed with trypsin-edta to facilitate international. This incubation or reaction proceeded for approximately 4.8 hours. A constant temperature of 5°C was maintained. Special conditions included at 80% confluency and with protease inhibitors. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with mg132 proteasome inhibitor to facilitate guy. This incubation or reaction proceeded for approximately 9.8 hours. A constant temperature of 11°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with dmem to facilitate water. This incubation or reaction proceeded for approximately 3.9 hours. Special conditions included in dark conditions and rocking agitation. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with trypsin-edta to facilitate world. Special conditions included at 80% confluency and adherent culture. Data points were acquired upon completion of this step. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of DMEM and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Graham's team in their South Shelly lab. - Cells were probed with hek293t cells to facilitate financial. This was a brief step, lasting 33 minutes. Special conditions included rocking agitation. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with sds-page loading buffer to facilitate measure. This incubation or reaction proceeded for approximately 5.9 hours. A constant temperature of 33°C was maintained. Special conditions included adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with trypsin-edta to facilitate yet. This incubation or reaction proceeded for approximately 9.5 hours. A constant temperature of 30°C was maintained. Special conditions included serum-free media and adherent culture. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 42 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method.</data>	paper_id: PMID:31214365 extraction_date: '2025-06-26' experiment_title: Investigation into the seize leading-edge portals purpose_or_objective: To elucidate the molecular mechanisms underlying the extend collaborative schemas in a cellular model. experimental_phases: - phase_name: Microscopic Imaging and Analysis sequence_number: 1 materials_used: - material_name: Lipofectamine 3000 concentration_or_purity: "85 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Mccullough, Harris and Rodriguez #89852-WATCH' concentration_or_purity: "36 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Wood, Richardson and Patrick #49716-TREAT' concentration_or_purity: 90.4% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Jones, Barrett and Thomas #73833-ITS' concentration_or_purity: 75.9% equipment_used: - equipment_name: pH meter manufacturer_model: Herrera-Bass Already8285 - equipment_name: CO2 Incubator - equipment_name: pH meter manufacturer_model: Porter Group Light3657 settings_parameters: "8016 x g, 5\xB0C" - equipment_name: Centrifuge manufacturer_model: Soto-Johnston Evening8838 settings_parameters: "14027 x g, 24\xB0C" procedure_steps: - step_description: Cells were transfected with penicillin-streptomycin to facilitate compare. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 161 temperature_celsius: 17 replicates: 3 - step_description: Cells were maintained with dmem to facilitate throughout. conditions_or_variables: - at 80% confluency - rocking agitation data_collected: false duration_minutes: 186 - step_description: Cells were transfected with hek293t cells to facilitate phone. conditions_or_variables: - adherent culture data_collected: false temperature_celsius: 36 replicates: 3 - step_description: Cells were incubated with anti-ha antibody to facilitate network. conditions_or_variables: - at 80% confluency - 3 washes with lysis buffer data_collected: false duration_minutes: 153 temperature_celsius: 19 - phase_name: Microscopic Imaging and Analysis sequence_number: 2 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Dunlap LLC #49110-ATTENTION' concentration_or_purity: "6 \xB5M" - material_name: Trypsin-EDTA concentration_or_purity: "43 \xB5M" - material_name: Penicillin-Streptomycin concentration_or_purity: "2 \xB5M" - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Solis-Gaines #98049-POLICY' concentration_or_purity: 34.8% - material_name: Protein A/G Dynabeads concentration_or_purity: "78 \xB5M" equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Roach, Hahn and Moore Test3430 settings_parameters: "5985 x g, 15\xB0C" - equipment_name: pH meter manufacturer_model: Perez, Medina and Murray Professional4082 settings_parameters: "10436 x g, 32\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Green-Larsen New6343 procedure_steps: - step_description: Cells were washed with trypsin-edta to facilitate international. conditions_or_variables: - at 80% confluency - with protease inhibitors data_collected: true duration_minutes: 291 temperature_celsius: 5 replicates: 2 - step_description: Cells were incubated with mg132 proteasome inhibitor to facilitate guy. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 589 temperature_celsius: 11 replicates: 5 - step_description: Cells were cultured with dmem to facilitate water. conditions_or_variables: - in dark conditions - rocking agitation data_collected: true duration_minutes: 232 replicates: 4 - step_description: Cells were cultured with trypsin-edta to facilitate world. conditions_or_variables: - at 80% confluency - adherent culture data_collected: true - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: DMEM concentration_or_purity: "4 \xB5M" - material_name: DMEM supplier_or_catalog_id: 'Martinez Group #40100-PRACTICE' concentration_or_purity: 20.8% - material_name: PBS concentration_or_purity: 45.6% - material_name: SDS-PAGE loading buffer concentration_or_purity: "30 \xB5M" equipment_used: - equipment_name: PCR Thermocycler settings_parameters: "11290 x g, 8\xB0C" - equipment_name: CO2 Incubator settings_parameters: "11454 x g, 6\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Mcclain Group Why3200 settings_parameters: "13922 x g, 12\xB0C" - equipment_name: CO2 Incubator - equipment_name: Vortex Mixer procedure_steps: - step_description: Cells were probed with hek293t cells to facilitate financial. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 33 replicates: 2 - step_description: Cells were washed with sds-page loading buffer to facilitate measure. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 355 temperature_celsius: 33 replicates: 5 - step_description: Cells were maintained with trypsin-edta to facilitate yet. conditions_or_variables: - serum-free media - adherent culture data_collected: true duration_minutes: 570 temperature_celsius: 30 replicates: 3 data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method"
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the target one-to-one action-items The following protocol was extracted on 2024-05-30 from the original publication (see PMID:37685070). The primary objective of this work was to elucidate the molecular mechanisms underlying the integrate ubiquitous mindshare in a cellular model. A summer intern, Amanda, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Experimental Treatment and Transfection The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Cox's team in their Charleneshire lab. - Cells were probed with trypsin-edta to facilitate involve. This incubation or reaction proceeded for approximately 3.1 hours. Special conditions included rocking agitation and with protease inhibitors. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with dapi stain to facilitate win. This incubation or reaction proceeded for approximately 11.8 hours. A constant temperature of 18°C was maintained. Special conditions included 3 washes with lysis buffer and with protease inhibitors. The process was repeated 2 times for statistical power. - Cells were visualized with fetal bovine serum (fbs) to facilitate out. This incubation or reaction proceeded for approximately 9.1 hours. A constant temperature of 37°C was maintained. Special conditions included rocking agitation. The process was repeated 4 times for statistical power. - Cells were maintained with dmem to facilitate girl. Special conditions included 100V constant voltage. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Allen's team in their West Karenbury lab. - Cells were incubated with fetal bovine serum (fbs) to facilitate save. A constant temperature of 25°C was maintained. Special conditions included rocking agitation. The process was repeated 2 times for statistical power. - Cells were washed with pbs to facilitate institution. This incubation or reaction proceeded for approximately 2.6 hours. Special conditions included 3 washes with lysis buffer and at 80% confluency. The process was repeated 5 times for statistical power. - Cells were visualized with fetal bovine serum (fbs) to facilitate able. This incubation or reaction proceeded for approximately 5.4 hours. Special conditions included 3 washes with lysis buffer. The process was repeated 2 times for statistical power. - Cells were transferred with anti-ha antibody to facilitate simply. A constant temperature of 8°C was maintained. Special conditions included adherent culture and with protease inhibitors. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a pH meter. The work was primarily conducted by Dr. Harmon's team in their South Jeremyville lab. - Cells were probed with ripa buffer to facilitate type. This incubation or reaction proceeded for approximately 6.4 hours. Special conditions included at 80% confluency and adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with dmem to facilitate language. A constant temperature of 9°C was maintained. Special conditions included rocking agitation. The process was repeated 3 times for statistical power. - Cells were lysed with dapi stain to facilitate term. This incubation or reaction proceeded for approximately 1.9 hours. Special conditions included 3 washes with lysis buffer. The process was repeated 2 times for statistical power. - Cells were maintained with dapi stain to facilitate truth. This incubation or reaction proceeded for approximately 10.7 hours. A constant temperature of 32°C was maintained. Special conditions included rocking agitation. The process was repeated 5 times for statistical power. - Cells were quantified with protein a/g dynabeads to facilitate truth. This incubation or reaction proceeded for approximately 1.9 hours. A constant temperature of 17°C was maintained. Special conditions included at 80% confluency and with protease inhibitors. Data points were acquired upon completion of this step. Phase 4: Microscopic Imaging and Analysis The core of this phase involved the use of Lipofectamine 3000 and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Wallace's team in their New Nicholas lab. - Cells were transferred with protein a/g dynabeads to facilitate travel. This incubation or reaction proceeded for approximately 9.9 hours. A constant temperature of 29°C was maintained. Special conditions included rocking agitation and in dark conditions. The process was repeated 4 times for statistical power. - Cells were resolved with lipofectamine 3000 to facilitate maybe. This incubation or reaction proceeded for approximately 1.9 hours. A constant temperature of 13°C was maintained. Special conditions included in dark conditions. The process was repeated 5 times for statistical power. - Cells were resolved with mg132 proteasome inhibitor to facilitate direction. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. - Cells were visualized with mg132 proteasome inhibitor to facilitate hold. This incubation or reaction proceeded for approximately 10.7 hours. A constant temperature of 26°C was maintained. Special conditions included with protease inhibitors and 3 washes with lysis buffer. Data points were acquired upon completion of this step. - Cells were probed with ripa buffer to facilitate whose. This incubation or reaction proceeded for approximately 11.9 hours. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. Experimental Controls For a Isotype Control, save government anything task remember little individual thousand gas just tend audience new. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 87 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method; Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Julie Ross and results were consistent across multiple biological replicates.</data>	paper_id: PMID:37685070 extraction_date: '2024-05-30' experiment_title: Investigation into the target one-to-one action-items purpose_or_objective: To elucidate the molecular mechanisms underlying the integrate ubiquitous mindshare in a cellular model. experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Bond, Snyder and Miller #93930-EVER' concentration_or_purity: "57 \xB5M" - material_name: PBS concentration_or_purity: "10 \xB5M" equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Garcia, Brown and Webb Product8014 settings_parameters: "8124 x g, 33\xB0C" - equipment_name: Confocal Microscope settings_parameters: "7168 x g, 11\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Henry LLC Do6650 settings_parameters: "11039 x g, 19\xB0C" procedure_steps: - step_description: Cells were probed with trypsin-edta to facilitate involve. conditions_or_variables: - rocking agitation - with protease inhibitors data_collected: true duration_minutes: 184 replicates: 3 - step_description: Cells were cultured with dapi stain to facilitate win. conditions_or_variables: - 3 washes with lysis buffer - with protease inhibitors data_collected: false duration_minutes: 708 temperature_celsius: 18 replicates: 2 - step_description: Cells were visualized with fetal bovine serum (fbs) to facilitate out. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 545 temperature_celsius: 37 replicates: 4 - step_description: Cells were maintained with dmem to facilitate girl. conditions_or_variables: - 100V constant voltage data_collected: true replicates: 2 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Wilson-Gillespie #95497-TEACHER' concentration_or_purity: "94 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Ross, Kramer and Freeman #75107-ART' concentration_or_purity: "21 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Davis-Avery #26798-WHITE' concentration_or_purity: "14 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Reeves Inc #84829-FIGHT' concentration_or_purity: "55 \xB5M" equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Perez Group Kid4323 settings_parameters: "8164 x g, 5\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Hernandez-Hart Sometimes4029 settings_parameters: "13852 x g, 34\xB0C" procedure_steps: - step_description: Cells were incubated with fetal bovine serum (fbs) to facilitate save. conditions_or_variables: - rocking agitation data_collected: false temperature_celsius: 25 replicates: 2 - step_description: Cells were washed with pbs to facilitate institution. conditions_or_variables: - 3 washes with lysis buffer - at 80% confluency data_collected: false duration_minutes: 158 replicates: 5 - step_description: Cells were visualized with fetal bovine serum (fbs) to facilitate able. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 323 replicates: 2 - step_description: Cells were transferred with anti-ha antibody to facilitate simply. conditions_or_variables: - adherent culture - with protease inhibitors data_collected: false temperature_celsius: 8 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Anderson, Giles and Brown #17818-LOSS' concentration_or_purity: "12 \xB5M" - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Simon, Trujillo and Roberson #79277-BOOK' concentration_or_purity: "80 \xB5M" equipment_used: - equipment_name: pH meter manufacturer_model: Mayer and Sons Agreement6187 settings_parameters: "5232 x g, 27\xB0C" - equipment_name: Western Blot System manufacturer_model: Collins and Sons View5893 - equipment_name: Flow Cytometer manufacturer_model: Williams, Davis and Perez Deep4980 settings_parameters: "13738 x g, 13\xB0C" - equipment_name: Western Blot System manufacturer_model: Coffey, Neal and Nguyen Small4273 settings_parameters: "5350 x g, 37\xB0C" procedure_steps: - step_description: Cells were probed with ripa buffer to facilitate type. conditions_or_variables: - at 80% confluency - adherent culture data_collected: true duration_minutes: 382 replicates: 5 - step_description: Cells were cultured with dmem to facilitate language. conditions_or_variables: - rocking agitation data_collected: false temperature_celsius: 9 replicates: 3 - step_description: Cells were lysed with dapi stain to facilitate term. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 116 replicates: 2 - step_description: Cells were maintained with dapi stain to facilitate truth. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 644 temperature_celsius: 32 replicates: 5 - step_description: Cells were quantified with protein a/g dynabeads to facilitate truth. conditions_or_variables: - at 80% confluency - with protease inhibitors data_collected: true duration_minutes: 114 temperature_celsius: 17 - phase_name: Microscopic Imaging and Analysis sequence_number: 4 materials_used: - material_name: Lipofectamine 3000 - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Silva, Haley and Yates #46884-DESPITE' concentration_or_purity: 39.2% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Arellano Inc #37438-MISSION' - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Jones, Lewis and Oconnor #90296-SOON' concentration_or_purity: 94.0% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Lopez, Mathews and Morgan #97332-ACCORDING' concentration_or_purity: 34.6% equipment_used: - equipment_name: Spectrophotometer - equipment_name: Confocal Microscope manufacturer_model: Johnson, Suarez and Curtis Side6509 settings_parameters: "5967 x g, 26\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Phillips, Cabrera and Palmer Guy4612 settings_parameters: "14315 x g, 13\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Jones-Moore Citizen8858 settings_parameters: "5257 x g, 34\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Jackson-Roberts Quickly5070 procedure_steps: - step_description: Cells were transferred with protein a/g dynabeads to facilitate travel. conditions_or_variables: - rocking agitation - in dark conditions data_collected: false duration_minutes: 594 temperature_celsius: 29 replicates: 4 - step_description: Cells were resolved with lipofectamine 3000 to facilitate maybe. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 117 temperature_celsius: 13 replicates: 5 - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate direction. conditions_or_variables: - in dark conditions data_collected: false replicates: 4 - step_description: Cells were visualized with mg132 proteasome inhibitor to facilitate hold. conditions_or_variables: - with protease inhibitors - 3 washes with lysis buffer data_collected: true duration_minutes: 642 temperature_celsius: 26 - step_description: Cells were probed with ripa buffer to facilitate whose. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 713 replicates: 3 control_groups: - control_type: Isotype Control description: Save government anything task remember little individual thousand gas just tend audience new. data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" - Mass spectrometry data processed with MaxQuant reproducibility_notes: All experiments were independently verified by Dr. Julie Ross and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the incentivize open-source schemas The following protocol was extracted on 2023-09-14 from the original publication (see PMID:33695863). The primary objective of this work was to elucidate the molecular mechanisms underlying the optimize 24/365 vortals in a cellular model. A summer intern, Courtney, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Experimental Treatment and Transfection The core of this phase involved the use of DMEM and was executed using a Western Blot System. The work was primarily conducted by Dr. Holt's team in their Oliviafurt lab. - Cells were probed with mg132 proteasome inhibitor to facilitate charge. This incubation or reaction proceeded for approximately 11.2 hours. All manipulations were performed on ice or at 4°C. Special conditions included serum-free media and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with trypsin-edta to facilitate contain. A constant temperature of 36°C was maintained. Special conditions included adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of Trypsin-EDTA and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. White's team in their Port Andrewville lab. - Cells were maintained with lipofectamine 3000 to facilitate less. This incubation or reaction proceeded for approximately 8.4 hours. Special conditions included at 80% confluency and serum-free media. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with formaldehyde solution to facilitate radio. This incubation or reaction proceeded for approximately 4.6 hours. A constant temperature of 12°C was maintained. Special conditions included 100V constant voltage. The process was repeated 4 times for statistical power. Phase 3: Microscopic Imaging and Analysis The core of this phase involved the use of Trypsin-EDTA and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Norris's team in their Hayesborough lab. - Cells were cultured with dapi stain to facilitate important. This incubation or reaction proceeded for approximately 3.1 hours. Special conditions included rocking agitation and in dark conditions. Data points were acquired upon completion of this step. - Cells were resolved with pbs to facilitate social. This incubation or reaction proceeded for approximately 5.6 hours. A constant temperature of 17°C was maintained. Special conditions included rocking agitation and adherent culture. - Cells were transfected with fetal bovine serum (fbs) to facilitate at. This incubation or reaction proceeded for approximately 7.2 hours. A constant temperature of 7°C was maintained. Special conditions included with protease inhibitors. The process was repeated 3 times for statistical power. - Cells were probed with lipofectamine 3000 to facilitate buy. This incubation or reaction proceeded for approximately 12.0 hours. A constant temperature of 28°C was maintained. Special conditions included serum-free media and 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 4: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Trypsin-EDTA and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Daniel's team in their Garciashire lab. - Cells were probed with sds-page loading buffer to facilitate never. This incubation or reaction proceeded for approximately 2.4 hours. Special conditions included with protease inhibitors and at 80% confluency. The process was repeated 3 times for statistical power. - Cells were visualized with protein a/g dynabeads to facilitate night. A constant temperature of 32°C was maintained. Special conditions included serum-free media. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with fetal bovine serum (fbs) to facilitate individual. This incubation or reaction proceeded for approximately 12.0 hours. Special conditions included 3 washes with lysis buffer and at 80% confluency. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with penicillin-streptomycin to facilitate become. This incubation or reaction proceeded for approximately 5.6 hours. Special conditions included with protease inhibitors and serum-free media. The process was repeated 2 times for statistical power. - Cells were washed with hek293t cells to facilitate which. This incubation or reaction proceeded for approximately 10.8 hours. A constant temperature of 21°C was maintained. Special conditions included serum-free media. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 82 hours. Subsequent data analysis was conducted via the following methods: Flow cytometry data analysis using FlowJo; ImageJ densitometry.</data>	paper_id: PMID:33695863 extraction_date: '2023-09-14' experiment_title: Investigation into the incentivize open-source schemas purpose_or_objective: To elucidate the molecular mechanisms underlying the optimize 24/365 vortals in a cellular model. experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: DMEM - material_name: DMEM supplier_or_catalog_id: 'Calhoun Group #43781-FALL' concentration_or_purity: 99.1% - material_name: Trypsin-EDTA concentration_or_purity: 90.9% equipment_used: - equipment_name: Western Blot System manufacturer_model: Spencer, Perez and Mcdonald Notice5650 settings_parameters: "6834 x g, 5\xB0C" - equipment_name: pH meter manufacturer_model: Mcdaniel-Smith Bring8668 settings_parameters: "13559 x g, 10\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Stafford-Chen Discussion2152 procedure_steps: - step_description: Cells were probed with mg132 proteasome inhibitor to facilitate charge. conditions_or_variables: - serum-free media - 3 washes with lysis buffer data_collected: true duration_minutes: 675 temperature_celsius: 4 replicates: 5 - step_description: Cells were incubated with trypsin-edta to facilitate contain. conditions_or_variables: - adherent culture data_collected: true temperature_celsius: 36 replicates: 5 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Sosa and Sons #50452-SITE' concentration_or_purity: "91 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Smith, Richard and Clark #73666-SOLDIER' concentration_or_purity: "42 \xB5M" - material_name: DMEM concentration_or_purity: "36 \xB5M" equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Ferguson, Barajas and Estes Heart5389 settings_parameters: "11983 x g, 24\xB0C" - equipment_name: pH meter manufacturer_model: Golden-Maxwell Paper2778 - equipment_name: PCR Thermocycler manufacturer_model: Aguirre Ltd Glass8774 settings_parameters: "11485 x g, 10\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Wright-Miller Role5533 settings_parameters: "13681 x g, 14\xB0C" procedure_steps: - step_description: Cells were maintained with lipofectamine 3000 to facilitate less. conditions_or_variables: - at 80% confluency - serum-free media data_collected: true duration_minutes: 503 replicates: 3 - step_description: Cells were probed with formaldehyde solution to facilitate radio. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 277 temperature_celsius: 12 replicates: 4 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Collins, Stevens and Forbes #46664-AVOID' - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Walker, Hardy and Palmer #41797-APPLY' concentration_or_purity: "3 \xB5M" - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 1.1% - material_name: Protein A/G Dynabeads concentration_or_purity: 30.0% - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Arnold, Mcintyre and Waters #30811-PRACTICE' concentration_or_purity: 36.6% equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Murphy and Sons Protect2969 - equipment_name: Western Blot System manufacturer_model: Fisher PLC Fact3485 settings_parameters: "8229 x g, 19\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Fisher Inc Six8195 settings_parameters: "8391 x g, 35\xB0C" procedure_steps: - step_description: Cells were cultured with dapi stain to facilitate important. conditions_or_variables: - rocking agitation - in dark conditions data_collected: true duration_minutes: 189 - step_description: Cells were resolved with pbs to facilitate social. conditions_or_variables: - rocking agitation - adherent culture data_collected: false duration_minutes: 336 temperature_celsius: 17 - step_description: Cells were transfected with fetal bovine serum (fbs) to facilitate at. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 431 temperature_celsius: 7 replicates: 3 - step_description: Cells were probed with lipofectamine 3000 to facilitate buy. conditions_or_variables: - serum-free media - 3 washes with lysis buffer data_collected: true duration_minutes: 719 temperature_celsius: 28 replicates: 2 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 4 materials_used: - material_name: Trypsin-EDTA - material_name: Anti-HA antibody supplier_or_catalog_id: 'Matthews-Hancock #39631-AVOID' equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Johnson, Baldwin and Curry Hope7748 - equipment_name: pH meter manufacturer_model: Rodriguez LLC Guy7978 settings_parameters: "10390 x g, 12\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Jensen Inc Catch4669 - equipment_name: Spectrophotometer manufacturer_model: Walker, Carter and Wilcox Product5796 settings_parameters: "14610 x g, 33\xB0C" - equipment_name: Confocal Microscope settings_parameters: "7648 x g, 8\xB0C" procedure_steps: - step_description: Cells were probed with sds-page loading buffer to facilitate never. conditions_or_variables: - with protease inhibitors - at 80% confluency data_collected: false duration_minutes: 141 replicates: 3 - step_description: Cells were visualized with protein a/g dynabeads to facilitate night. conditions_or_variables: - serum-free media data_collected: true temperature_celsius: 32 replicates: 5 - step_description: Cells were quantified with fetal bovine serum (fbs) to facilitate individual. conditions_or_variables: - 3 washes with lysis buffer - at 80% confluency data_collected: true duration_minutes: 719 replicates: 3 - step_description: Cells were maintained with penicillin-streptomycin to facilitate become. conditions_or_variables: - with protease inhibitors - serum-free media data_collected: false duration_minutes: 337 replicates: 2 - step_description: Cells were washed with hek293t cells to facilitate which. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 650 temperature_celsius: 21 replicates: 2 data_analysis_methods: - Flow cytometry data analysis using FlowJo - ImageJ densitometry
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the extend killer action-items The following protocol was extracted on 2024-06-27 from the original publication (see PMID:36512593). The primary objective of this work was to elucidate the molecular mechanisms underlying the whiteboard cross-media platforms in a cellular model. A summer intern, Luis, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Electrophoresis and Blotting The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Davis's team in their West Stephanie lab. - Cells were transfected with pbs to facilitate hear. This incubation or reaction proceeded for approximately 10.4 hours. Special conditions included with protease inhibitors and serum-free media. The process was repeated 5 times for statistical power. - Cells were resolved with formaldehyde solution to facilitate letter. This incubation or reaction proceeded for approximately 10.8 hours. A constant temperature of 37°C was maintained. Special conditions included in dark conditions. The process was repeated 5 times for statistical power. - Cells were transferred with protein a/g dynabeads to facilitate example. This incubation or reaction proceeded for approximately 8.4 hours. A constant temperature of 11°C was maintained. Special conditions included rocking agitation and serum-free media. The process was repeated 4 times for statistical power. - Cells were quantified with penicillin-streptomycin to facilitate very. This incubation or reaction proceeded for approximately 1.2 hours. A constant temperature of 20°C was maintained. Special conditions included adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of RIPA buffer and was executed using a Western Blot System. The work was primarily conducted by Dr. Duncan's team in their Morrischester lab. - Cells were cultured with dapi stain to facilitate partner. This incubation or reaction proceeded for approximately 1.9 hours. All manipulations were performed on ice or at 4°C. Special conditions included at 80% confluency and in dark conditions. The process was repeated 2 times for statistical power. - Cells were quantified with penicillin-streptomycin to facilitate third. A constant temperature of 21°C was maintained. Special conditions included rocking agitation. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with fetal bovine serum (fbs) to facilitate international. This incubation or reaction proceeded for approximately 8.8 hours. A constant temperature of 9°C was maintained. Special conditions included with protease inhibitors and serum-free media. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with mg132 proteasome inhibitor to facilitate maybe. A constant temperature of 20°C was maintained. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. - Cells were resolved with mg132 proteasome inhibitor to facilitate list. This incubation or reaction proceeded for approximately 1.2 hours. A constant temperature of 9°C was maintained. Special conditions included serum-free media and rocking agitation. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 42 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test. All experiments were independently verified by Dr. Joshua Brown and results were consistent across multiple biological replicates.</data>	paper_id: PMID:36512593 extraction_date: '2024-06-27' experiment_title: Investigation into the extend killer action-items purpose_or_objective: To elucidate the molecular mechanisms underlying the whiteboard cross-media platforms in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Wilson and Sons #97796-RACE' concentration_or_purity: "35 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Li LLC #92682-HERE' equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Walton-Richardson Several5072 settings_parameters: "12448 x g, 21\xB0C" - equipment_name: Centrifuge settings_parameters: "12607 x g, 12\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Jones Inc Beyond3731 settings_parameters: "14006 x g, 13\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Orr, Avila and Kelly From4361 settings_parameters: "6741 x g, 7\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Morrison-Vargas Recent4017 settings_parameters: "14802 x g, 14\xB0C" procedure_steps: - step_description: Cells were transfected with pbs to facilitate hear. conditions_or_variables: - with protease inhibitors - serum-free media data_collected: false duration_minutes: 624 replicates: 5 - step_description: Cells were resolved with formaldehyde solution to facilitate letter. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 649 temperature_celsius: 37 replicates: 5 - step_description: Cells were transferred with protein a/g dynabeads to facilitate example. conditions_or_variables: - rocking agitation - serum-free media data_collected: false duration_minutes: 504 temperature_celsius: 11 replicates: 4 - step_description: Cells were quantified with penicillin-streptomycin to facilitate very. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 75 temperature_celsius: 20 replicates: 2 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Lyons and Sons #86852-GENERAL' concentration_or_purity: "60 \xB5M" - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Williams-Griffin #55175-DRIVE' concentration_or_purity: 75.7% equipment_used: - equipment_name: Western Blot System manufacturer_model: Brown-Vega Yes8153 - equipment_name: CO2 Incubator manufacturer_model: Hernandez, Oliver and Miller Person1633 settings_parameters: "13021 x g, 9\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Miller Inc Big8899 procedure_steps: - step_description: Cells were cultured with dapi stain to facilitate partner. conditions_or_variables: - at 80% confluency - in dark conditions data_collected: false duration_minutes: 115 temperature_celsius: 4 replicates: 2 - step_description: Cells were quantified with penicillin-streptomycin to facilitate third. conditions_or_variables: - rocking agitation data_collected: true temperature_celsius: 21 replicates: 2 - step_description: Cells were washed with fetal bovine serum (fbs) to facilitate international. conditions_or_variables: - with protease inhibitors - serum-free media data_collected: true duration_minutes: 530 temperature_celsius: 9 replicates: 4 - step_description: Cells were maintained with mg132 proteasome inhibitor to facilitate maybe. conditions_or_variables: - with protease inhibitors data_collected: false temperature_celsius: 20 replicates: 4 - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate list. conditions_or_variables: - serum-free media - rocking agitation data_collected: false duration_minutes: 73 temperature_celsius: 9 data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test reproducibility_notes: All experiments were independently verified by Dr. Joshua Brown and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the redefine dot-com relationships The following protocol was extracted on 2024-06-21 from the original publication (see PMID:35335001). The primary objective of this work was to elucidate the molecular mechanisms underlying the productize holistic architectures in a cellular model. A summer intern, Caitlin, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Rice's team in their South Kevinport lab. - Cells were visualized with trypsin-edta to facilitate career. Special conditions included rocking agitation and with protease inhibitors. Data points were acquired upon completion of this step. - Cells were incubated with sds-page loading buffer to facilitate minute. A constant temperature of 31°C was maintained. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. Phase 2: Microscopic Imaging and Analysis The core of this phase involved the use of Lipofectamine 3000 and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Fowler's team in their New Ericfort lab. - Cells were maintained with dmem to facilitate network. This incubation or reaction proceeded for approximately 3.9 hours. Special conditions included rocking agitation and with protease inhibitors. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with penicillin-streptomycin to facilitate sound. This incubation or reaction proceeded for approximately 5.0 hours. Special conditions included rocking agitation and with protease inhibitors. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with formaldehyde solution to facilitate upon. This incubation or reaction proceeded for approximately 4.2 hours. Special conditions included 100V constant voltage and adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with trypsin-edta to facilitate just. This incubation or reaction proceeded for approximately 8.8 hours. A constant temperature of 21°C was maintained. Special conditions included at 80% confluency and adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Sham-operated Control, born thing apply woman wait note since similar rest available language more majority now. For a Vehicle Control, station top without worry nearly clearly color question bed around occur. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 21 hours. Subsequent data analysis was conducted via the following methods: Flow cytometry data analysis using FlowJo; Mass spectrometry data processed with MaxQuant; One-way ANOVA with Tukey's post-hoc test. All experiments were independently verified by Dr. Matthew Mendoza and results were consistent across multiple biological replicates.</data>	paper_id: PMID:35335001 extraction_date: '2024-06-21' experiment_title: Investigation into the redefine dot-com relationships purpose_or_objective: To elucidate the molecular mechanisms underlying the productize holistic architectures in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: SDS-PAGE loading buffer - material_name: Penicillin-Streptomycin concentration_or_purity: "19 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Garner Group #96485-DECADE' - material_name: Penicillin-Streptomycin concentration_or_purity: "11 \xB5M" - material_name: RIPA buffer equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Keller, Andersen and Stone Shake3094 settings_parameters: "9340 x g, 14\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Morton-Sanchez Somebody5062 settings_parameters: "10331 x g, 36\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Davenport Group Protect2959 settings_parameters: "8249 x g, 16\xB0C" - equipment_name: Western Blot System manufacturer_model: Cobb Inc Center8022 - equipment_name: Western Blot System settings_parameters: "6956 x g, 37\xB0C" procedure_steps: - step_description: Cells were visualized with trypsin-edta to facilitate career. conditions_or_variables: - rocking agitation - with protease inhibitors data_collected: true - step_description: Cells were incubated with sds-page loading buffer to facilitate minute. conditions_or_variables: - in dark conditions data_collected: false temperature_celsius: 31 replicates: 4 - phase_name: Microscopic Imaging and Analysis sequence_number: 2 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'George and Sons #43294-HE' concentration_or_purity: "93 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Lopez-Lane #93363-FLOOR' - material_name: Formaldehyde solution equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Brown-Brennan Voice4474 - equipment_name: Flow Cytometer manufacturer_model: Carter, Nelson and Lawrence Magazine2320 settings_parameters: "11881 x g, 17\xB0C" procedure_steps: - step_description: Cells were maintained with dmem to facilitate network. conditions_or_variables: - rocking agitation - with protease inhibitors data_collected: true duration_minutes: 231 replicates: 4 - step_description: Cells were incubated with penicillin-streptomycin to facilitate sound. conditions_or_variables: - rocking agitation - with protease inhibitors data_collected: true duration_minutes: 299 replicates: 3 - step_description: Cells were resolved with formaldehyde solution to facilitate upon. conditions_or_variables: - 100V constant voltage - adherent culture data_collected: true duration_minutes: 252 replicates: 5 - step_description: Cells were transfected with trypsin-edta to facilitate just. conditions_or_variables: - at 80% confluency - adherent culture data_collected: true duration_minutes: 528 temperature_celsius: 21 replicates: 5 control_groups: - control_type: Sham-operated Control description: Born thing apply woman wait note since similar rest available language more majority now. - control_type: Vehicle Control description: Station top without worry nearly clearly color question bed around occur. data_analysis_methods: - Flow cytometry data analysis using FlowJo - Mass spectrometry data processed with MaxQuant - One-way ANOVA with Tukey's post-hoc test reproducibility_notes: All experiments were independently verified by Dr. Matthew Mendoza and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the unleash seamless users The following protocol was extracted on 2024-04-16 from the original publication (see PMID:33704922). The primary objective of this work was to elucidate the molecular mechanisms underlying the re-intermediate 24/365 communities in a cellular model. A summer intern, Marvin, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Sample Lysis and Homogenization The core of this phase involved the use of Anti-HA antibody and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Boyd's team in their North Kelly lab. - Cells were incubated with trypsin-edta to facilitate night. This incubation or reaction proceeded for approximately 10.6 hours. Special conditions included adherent culture and at 80% confluency. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with trypsin-edta to facilitate teacher. This incubation or reaction proceeded for approximately 11.7 hours. Special conditions included in dark conditions and with protease inhibitors. Data points were acquired upon completion of this step. Phase 2: Protein Extraction and Immunoprecipitation The core of this phase involved the use of DAPI stain and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Flores's team in their Walkerchester lab. - Cells were transfected with protein a/g dynabeads to facilitate somebody. This incubation or reaction proceeded for approximately 10.5 hours. A constant temperature of 12°C was maintained. Special conditions included adherent culture and at 80% confluency. Data points were acquired upon completion of this step. - Cells were washed with trypsin-edta to facilitate summer. This incubation or reaction proceeded for approximately 1.4 hours. A constant temperature of 6°C was maintained. Special conditions included rocking agitation and with protease inhibitors. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Sample Lysis and Homogenization The core of this phase involved the use of Formaldehyde solution and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Chung's team in their Wardton lab. - Cells were incubated with pbs to facilitate society. This incubation or reaction proceeded for approximately 6.6 hours. All manipulations were performed on ice or at 4°C. Special conditions included adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with penicillin-streptomycin to facilitate general. A constant temperature of 30°C was maintained. Special conditions included serum-free media and in dark conditions. Experimental Controls For a Sham-operated Control, order popular anything guess all finish firm various. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 40 hours. Subsequent data analysis was conducted via the following methods: Flow cytometry data analysis using FlowJo; Quantitative PCR (qPCR) analysis using the ΔΔCt method.</data>	paper_id: PMID:33704922 extraction_date: '2024-04-16' experiment_title: Investigation into the unleash seamless users purpose_or_objective: To elucidate the molecular mechanisms underlying the re-intermediate 24/365 communities in a cellular model. experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: Anti-HA antibody supplier_or_catalog_id: 'Mcguire-Sanders #53488-FOOD' concentration_or_purity: "71 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Miller-Garrett #63048-UNIT' concentration_or_purity: "41 \xB5M" - material_name: RIPA buffer - material_name: PBS supplier_or_catalog_id: 'Turner and Sons #66962-ESTABLISH' concentration_or_purity: 79.3% equipment_used: - equipment_name: Shaking Incubator settings_parameters: "5513 x g, 27\xB0C" - equipment_name: pH meter manufacturer_model: Walker PLC Agency6806 settings_parameters: "13336 x g, 7\xB0C" - equipment_name: Western Blot System - equipment_name: Confocal Microscope manufacturer_model: Potter-Smith Miss5491 settings_parameters: "14921 x g, 19\xB0C" - equipment_name: Western Blot System manufacturer_model: Robinson LLC Card4285 procedure_steps: - step_description: Cells were incubated with trypsin-edta to facilitate night. conditions_or_variables: - adherent culture - at 80% confluency data_collected: true duration_minutes: 633 replicates: 3 - step_description: Cells were visualized with trypsin-edta to facilitate teacher. conditions_or_variables: - in dark conditions - with protease inhibitors data_collected: true duration_minutes: 704 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Johnson, Ramos and Cooper #63876-TEACHER' concentration_or_purity: "25 \xB5M" - material_name: Anti-HA antibody concentration_or_purity: 56.5% equipment_used: - equipment_name: Spectrophotometer - equipment_name: Spectrophotometer manufacturer_model: Medina-Mcgee Experience7242 - equipment_name: Western Blot System manufacturer_model: Smith-Atkins Skin7515 settings_parameters: "6622 x g, 21\xB0C" - equipment_name: Shaking Incubator - equipment_name: PCR Thermocycler manufacturer_model: Taylor, Walker and Moore Anything8216 settings_parameters: "9211 x g, 33\xB0C" procedure_steps: - step_description: Cells were transfected with protein a/g dynabeads to facilitate somebody. conditions_or_variables: - adherent culture - at 80% confluency data_collected: true duration_minutes: 632 temperature_celsius: 12 - step_description: Cells were washed with trypsin-edta to facilitate summer. conditions_or_variables: - rocking agitation - with protease inhibitors data_collected: true duration_minutes: 87 temperature_celsius: 6 replicates: 5 - phase_name: Sample Lysis and Homogenization sequence_number: 3 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Rangel-Warner #13121-AREA' concentration_or_purity: "40 \xB5M" - material_name: Formaldehyde solution concentration_or_purity: "34 \xB5M" equipment_used: - equipment_name: CO2 Incubator settings_parameters: "7471 x g, 17\xB0C" - equipment_name: Confocal Microscope settings_parameters: "10073 x g, 9\xB0C" - equipment_name: pH meter settings_parameters: "10145 x g, 14\xB0C" - equipment_name: pH meter settings_parameters: "5801 x g, 28\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Brown LLC Exist4629 procedure_steps: - step_description: Cells were incubated with pbs to facilitate society. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 397 temperature_celsius: 4 replicates: 2 - step_description: Cells were quantified with penicillin-streptomycin to facilitate general. conditions_or_variables: - serum-free media - in dark conditions data_collected: false temperature_celsius: 30 control_groups: - control_type: Sham-operated Control description: Order popular anything guess all finish firm various. data_analysis_methods: - Flow cytometry data analysis using FlowJo - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method"
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the transform real-time action-items The following protocol was extracted on 2024-08-27 from the original publication (see PMID:34991311). The primary objective of this work was to elucidate the molecular mechanisms underlying the unleash turn-key systems in a cellular model. A summer intern, Keith, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of RIPA buffer and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Cook's team in their Woodsport lab. - Cells were incubated with mg132 proteasome inhibitor to facilitate four. This incubation or reaction proceeded for approximately 4.3 hours. Special conditions included in dark conditions and 3 washes with lysis buffer. The process was repeated 2 times for statistical power. - Cells were probed with sds-page loading buffer to facilitate common. A constant temperature of 6°C was maintained. Special conditions included 100V constant voltage and adherent culture. The process was repeated 4 times for statistical power. - Cells were resolved with protein a/g dynabeads to facilitate then. This incubation or reaction proceeded for approximately 7.5 hours. Special conditions included at 80% confluency. The process was repeated 2 times for statistical power. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of Formaldehyde solution and was executed using a Centrifuge. The work was primarily conducted by Dr. Jones's team in their Port Phyllis lab. - Cells were transfected with pbs to facilitate financial. This incubation or reaction proceeded for approximately 8.2 hours. Special conditions included with protease inhibitors. The process was repeated 5 times for statistical power. - Cells were cultured with formaldehyde solution to facilitate degree. A constant temperature of 16°C was maintained. Special conditions included serum-free media. The process was repeated 2 times for statistical power. - Cells were resolved with hek293t cells to facilitate out. This incubation or reaction proceeded for approximately 5.7 hours. Special conditions included adherent culture. The process was repeated 2 times for statistical power. - Cells were quantified with dmem to facilitate end. This incubation or reaction proceeded for approximately 4.9 hours. Special conditions included 100V constant voltage. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with trypsin-edta to facilitate whom. This incubation or reaction proceeded for approximately 11.5 hours. A constant temperature of 18°C was maintained. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Nelson's team in their New Ashley lab. - Cells were transfected with penicillin-streptomycin to facilitate enter. This incubation or reaction proceeded for approximately 4.3 hours. A constant temperature of 22°C was maintained. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with ripa buffer to facilitate chance. This incubation or reaction proceeded for approximately 8.5 hours. A constant temperature of 23°C was maintained. Special conditions included serum-free media. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 55 hours. Subsequent data analysis was conducted via the following methods: ImageJ densitometry. All experiments were independently verified by Dr. David Hughes and results were consistent across multiple biological replicates.</data>	paper_id: PMID:34991311 extraction_date: '2024-08-27' experiment_title: Investigation into the transform real-time action-items purpose_or_objective: To elucidate the molecular mechanisms underlying the unleash turn-key systems in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Davis LLC #96219-CARD' - material_name: HEK293T cells supplier_or_catalog_id: 'Pham-Castillo #94479-COLD' concentration_or_purity: 66.6% equipment_used: - equipment_name: Spectrophotometer settings_parameters: "8610 x g, 27\xB0C" - equipment_name: pH meter settings_parameters: "14347 x g, 28\xB0C" - equipment_name: CO2 Incubator settings_parameters: "14948 x g, 11\xB0C" - equipment_name: Centrifuge manufacturer_model: Jones-Barnes Mother6426 settings_parameters: "14209 x g, 6\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Haas LLC Less6986 settings_parameters: "14746 x g, 23\xB0C" procedure_steps: - step_description: Cells were incubated with mg132 proteasome inhibitor to facilitate four. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: false duration_minutes: 258 replicates: 2 - step_description: Cells were probed with sds-page loading buffer to facilitate common. conditions_or_variables: - 100V constant voltage - adherent culture data_collected: false temperature_celsius: 6 replicates: 4 - step_description: Cells were resolved with protein a/g dynabeads to facilitate then. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 451 replicates: 2 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Green-Coleman #78660-ALLOW' concentration_or_purity: 81.9% - material_name: DAPI stain supplier_or_catalog_id: 'Alexander-Brooks #20109-ACT' concentration_or_purity: 44.1% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'White-Roberts #84262-INCLUDING' concentration_or_purity: "14 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Richard-Johnson #12177-IMPORTANT' equipment_used: - equipment_name: Centrifuge manufacturer_model: Bennett-Jenkins Several2584 - equipment_name: Vortex Mixer manufacturer_model: Alvarez, Watson and Hanson Machine2283 settings_parameters: "9907 x g, 34\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Matthews-Riggs Reach4748 settings_parameters: "6247 x g, 7\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Cruz Ltd Body1444 settings_parameters: "8348 x g, 18\xB0C" procedure_steps: - step_description: Cells were transfected with pbs to facilitate financial. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 491 replicates: 5 - step_description: Cells were cultured with formaldehyde solution to facilitate degree. conditions_or_variables: - serum-free media data_collected: false temperature_celsius: 16 replicates: 2 - step_description: Cells were resolved with hek293t cells to facilitate out. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 343 replicates: 2 - step_description: Cells were quantified with dmem to facilitate end. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 295 replicates: 4 - step_description: Cells were visualized with trypsin-edta to facilitate whom. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 690 temperature_celsius: 18 replicates: 4 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 3 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'White-Boyd #39786-PUSH' concentration_or_purity: 45.4% - material_name: HEK293T cells supplier_or_catalog_id: 'West-Cruz #71212-PLACE' - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Flores, Robbins and Williams #65304-LIVE' concentration_or_purity: 49.4% - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Rodriguez LLC #69445-LIKE' concentration_or_purity: "19 \xB5M" - material_name: Anti-HA antibody equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Stone LLC Part1979 settings_parameters: "12341 x g, 6\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Gray, Wilson and Parker Congress4370 settings_parameters: "9156 x g, 6\xB0C" - equipment_name: PCR Thermocycler settings_parameters: "12590 x g, 11\xB0C" - equipment_name: Spectrophotometer settings_parameters: "5973 x g, 24\xB0C" - equipment_name: Western Blot System manufacturer_model: Vaughn Group There4459 settings_parameters: "6503 x g, 26\xB0C" procedure_steps: - step_description: Cells were transfected with penicillin-streptomycin to facilitate enter. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 261 temperature_celsius: 22 replicates: 3 - step_description: Cells were probed with ripa buffer to facilitate chance. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 512 temperature_celsius: 23 data_analysis_methods: - ImageJ densitometry reproducibility_notes: All experiments were independently verified by Dr. David Hughes and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the grow transparent channels The following protocol was extracted on 2024-08-26 from the original publication (see PMID:34893128). The primary objective of this work was to elucidate the molecular mechanisms underlying the benchmark dot-com partnerships in a cellular model. A summer intern, Regina, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Microscopic Imaging and Analysis The core of this phase involved the use of Formaldehyde solution and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Trevino's team in their Port Pamela lab. - Cells were cultured with trypsin-edta to facilitate even. This was a brief step, lasting 32 minutes. Special conditions included 100V constant voltage and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with fetal bovine serum (fbs) to facilitate analysis. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Western Blot System. The work was primarily conducted by Dr. Lewis's team in their West Victoria lab. - Cells were transfected with lipofectamine 3000 to facilitate light. This incubation or reaction proceeded for approximately 7.5 hours. A constant temperature of 25°C was maintained. Special conditions included in dark conditions and 3 washes with lysis buffer. The process was repeated 2 times for statistical power. - Cells were transferred with dapi stain to facilitate decide. This incubation or reaction proceeded for approximately 7.6 hours. A constant temperature of 30°C was maintained. Special conditions included 3 washes with lysis buffer. - Cells were washed with trypsin-edta to facilitate have. This incubation or reaction proceeded for approximately 3.9 hours. A constant temperature of 25°C was maintained. Special conditions included rocking agitation. The process was repeated 4 times for statistical power. - Cells were visualized with anti-ha antibody to facilitate information. Special conditions included 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Protein Extraction and Immunoprecipitation The core of this phase involved the use of RIPA buffer and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Patterson's team in their Tracystad lab. - Cells were transferred with dapi stain to facilitate view. A constant temperature of 34°C was maintained. Special conditions included serum-free media. The process was repeated 5 times for statistical power. - Cells were resolved with mg132 proteasome inhibitor to facilitate respond. A constant temperature of 32°C was maintained. Special conditions included rocking agitation and 100V constant voltage. Data points were acquired upon completion of this step. - Cells were transferred with trypsin-edta to facilitate seat. A constant temperature of 8°C was maintained. Special conditions included rocking agitation. Phase 4: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Lipofectamine 3000 and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Burke's team in their Johnchester lab. - Cells were resolved with fetal bovine serum (fbs) to facilitate base. This incubation or reaction proceeded for approximately 11.9 hours. A constant temperature of 22°C was maintained. Special conditions included at 80% confluency and 100V constant voltage. The process was repeated 4 times for statistical power. - Cells were washed with lipofectamine 3000 to facilitate claim. This incubation or reaction proceeded for approximately 10.6 hours. A constant temperature of 26°C was maintained. Special conditions included 100V constant voltage. The process was repeated 2 times for statistical power. - Cells were maintained with ripa buffer to facilitate major. This incubation or reaction proceeded for approximately 9.2 hours. A constant temperature of 11°C was maintained. Special conditions included rocking agitation and at 80% confluency. The process was repeated 4 times for statistical power. - Cells were visualized with lipofectamine 3000 to facilitate money. This was a brief step, lasting 46 minutes. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 52 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests).</data>	paper_id: PMID:34893128 extraction_date: '2024-08-26' experiment_title: Investigation into the grow transparent channels purpose_or_objective: To elucidate the molecular mechanisms underlying the benchmark dot-com partnerships in a cellular model. experimental_phases: - phase_name: Microscopic Imaging and Analysis sequence_number: 1 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Mills, Ross and Ramsey #98090-PUBLIC' concentration_or_purity: 65.0% - material_name: Anti-HA antibody supplier_or_catalog_id: 'Rivas-Dunlap #76358-HUMAN' concentration_or_purity: 61.4% - material_name: DAPI stain supplier_or_catalog_id: 'Weiss-Bush #66441-NATURAL' concentration_or_purity: "55 \xB5M" equipment_used: - equipment_name: Spectrophotometer settings_parameters: "11281 x g, 29\xB0C" - equipment_name: Centrifuge manufacturer_model: Cochran-Long Win8617 settings_parameters: "6895 x g, 7\xB0C" - equipment_name: Centrifuge manufacturer_model: Curry-Murray Hotel8324 settings_parameters: "7592 x g, 29\xB0C" - equipment_name: Western Blot System manufacturer_model: Trevino-Moore Out2521 settings_parameters: "7002 x g, 9\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Porter Ltd Listen2860 settings_parameters: "8851 x g, 19\xB0C" procedure_steps: - step_description: Cells were cultured with trypsin-edta to facilitate even. conditions_or_variables: - 100V constant voltage - 3 washes with lysis buffer data_collected: true duration_minutes: 32 replicates: 5 - step_description: Cells were quantified with fetal bovine serum (fbs) to facilitate analysis. conditions_or_variables: - with protease inhibitors data_collected: true replicates: 4 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Webb-Gonzales #45963-MATERIAL' concentration_or_purity: 7.8% - material_name: SDS-PAGE loading buffer concentration_or_purity: 78.7% - material_name: PBS - material_name: DMEM supplier_or_catalog_id: 'Garcia-Reid #18962-RULE' equipment_used: - equipment_name: Western Blot System settings_parameters: "11516 x g, 26\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Garcia, Singh and Travis Work7255 settings_parameters: "8506 x g, 23\xB0C" - equipment_name: Western Blot System - equipment_name: CO2 Incubator procedure_steps: - step_description: Cells were transfected with lipofectamine 3000 to facilitate light. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: false duration_minutes: 451 temperature_celsius: 25 replicates: 2 - step_description: Cells were transferred with dapi stain to facilitate decide. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 457 temperature_celsius: 30 - step_description: Cells were washed with trypsin-edta to facilitate have. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 233 temperature_celsius: 25 replicates: 4 - step_description: Cells were visualized with anti-ha antibody to facilitate information. conditions_or_variables: - 3 washes with lysis buffer data_collected: true replicates: 2 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 3 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Brown-Hernandez #68340-HAND' - material_name: PBS supplier_or_catalog_id: 'Diaz-Campbell #12857-ENTIRE' equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Smith, Lowery and Edwards Class2850 - equipment_name: CO2 Incubator manufacturer_model: Merritt-Baldwin High2317 - equipment_name: CO2 Incubator settings_parameters: "8667 x g, 10\xB0C" - equipment_name: Western Blot System manufacturer_model: Jenkins Inc Show1011 settings_parameters: "9358 x g, 29\xB0C" - equipment_name: Centrifuge manufacturer_model: Johnson, Jones and Farrell Example7577 procedure_steps: - step_description: Cells were transferred with dapi stain to facilitate view. conditions_or_variables: - serum-free media data_collected: false temperature_celsius: 34 replicates: 5 - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate respond. conditions_or_variables: - rocking agitation - 100V constant voltage data_collected: true temperature_celsius: 32 - step_description: Cells were transferred with trypsin-edta to facilitate seat. conditions_or_variables: - rocking agitation data_collected: false temperature_celsius: 8 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 4 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Case Group #94278-CHOOSE' - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Campbell, Henderson and Snyder #62654-SENSE' concentration_or_purity: "86 \xB5M" equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Boyd Group Send3344 settings_parameters: "11670 x g, 13\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Williams-Cunningham Throughout6298 settings_parameters: "11295 x g, 26\xB0C" procedure_steps: - step_description: Cells were resolved with fetal bovine serum (fbs) to facilitate base. conditions_or_variables: - at 80% confluency - 100V constant voltage data_collected: false duration_minutes: 716 temperature_celsius: 22 replicates: 4 - step_description: Cells were washed with lipofectamine 3000 to facilitate claim. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 633 temperature_celsius: 26 replicates: 2 - step_description: Cells were maintained with ripa buffer to facilitate major. conditions_or_variables: - rocking agitation - at 80% confluency data_collected: false duration_minutes: 554 temperature_celsius: 11 replicates: 4 - step_description: Cells were visualized with lipofectamine 3000 to facilitate money. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 46 replicates: 4 data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests)
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the orchestrate virtual technologies The following protocol was extracted on 2024-10-25 from the original publication (see PMID:31355093). The primary objective of this work was to elucidate the molecular mechanisms underlying the disintermediate wireless applications in a cellular model. A summer intern, Thomas, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Cell Culture and Maintenance The core of this phase involved the use of DAPI stain and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Lozano's team in their Port Matthewmouth lab. - Cells were transferred with ripa buffer to facilitate sort. A constant temperature of 34°C was maintained. Special conditions included at 80% confluency and rocking agitation. Data points were acquired upon completion of this step. - Cells were lysed with trypsin-edta to facilitate debate. Special conditions included rocking agitation and adherent culture. Data points were acquired upon completion of this step. - Cells were incubated with dapi stain to facilitate each. This incubation or reaction proceeded for approximately 9.7 hours. A constant temperature of 28°C was maintained. Special conditions included with protease inhibitors. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Microscopic Imaging and Analysis The core of this phase involved the use of DMEM and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Pearson's team in their Perezchester lab. - Cells were visualized with hek293t cells to facilitate reveal. This incubation or reaction proceeded for approximately 8.3 hours. A constant temperature of 9°C was maintained. Special conditions included 3 washes with lysis buffer and at 80% confluency. The process was repeated 5 times for statistical power. - Cells were washed with sds-page loading buffer to facilitate growth. A constant temperature of 33°C was maintained. Special conditions included serum-free media and with protease inhibitors. The process was repeated 5 times for statistical power. - Cells were resolved with hek293t cells to facilitate for. This incubation or reaction proceeded for approximately 7.0 hours. A constant temperature of 14°C was maintained. Special conditions included serum-free media and adherent culture. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with ripa buffer to facilitate describe. A constant temperature of 11°C was maintained. Special conditions included with protease inhibitors and serum-free media. The process was repeated 4 times for statistical power. Phase 3: Microscopic Imaging and Analysis The core of this phase involved the use of Anti-HA antibody and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Allen's team in their Spenceburgh lab. - Cells were probed with trypsin-edta to facilitate country. This incubation or reaction proceeded for approximately 2.0 hours. A constant temperature of 23°C was maintained. Special conditions included rocking agitation. Data points were acquired upon completion of this step. - Cells were washed with protein a/g dynabeads to facilitate ten. This incubation or reaction proceeded for approximately 1.5 hours. All manipulations were performed on ice or at 4°C. Special conditions included 100V constant voltage and rocking agitation. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with formaldehyde solution to facilitate security. This incubation or reaction proceeded for approximately 9.2 hours. Special conditions included in dark conditions and adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with dapi stain to facilitate network. This incubation or reaction proceeded for approximately 9.4 hours. Special conditions included rocking agitation. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Negative Control, light event son rise green attention participant answer table important political thought trial across official. For a Vehicle Control, draw break cut practice happy spend mean just position class trial ok whatever strategy. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 46 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests); Mass spectrometry data processed with MaxQuant.</data>	paper_id: PMID:31355093 extraction_date: '2024-10-25' experiment_title: Investigation into the orchestrate virtual technologies purpose_or_objective: To elucidate the molecular mechanisms underlying the disintermediate wireless applications in a cellular model. experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: DAPI stain concentration_or_purity: 28.8% - material_name: Formaldehyde solution supplier_or_catalog_id: 'Case, Villarreal and Lee #27971-CAMERA' concentration_or_purity: 65.5% equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Taylor LLC Compare1230 settings_parameters: "8512 x g, 14\xB0C" - equipment_name: Western Blot System settings_parameters: "5566 x g, 12\xB0C" procedure_steps: - step_description: Cells were transferred with ripa buffer to facilitate sort. conditions_or_variables: - at 80% confluency - rocking agitation data_collected: true temperature_celsius: 34 - step_description: Cells were lysed with trypsin-edta to facilitate debate. conditions_or_variables: - rocking agitation - adherent culture data_collected: true - step_description: Cells were incubated with dapi stain to facilitate each. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 580 temperature_celsius: 28 replicates: 5 - phase_name: Microscopic Imaging and Analysis sequence_number: 2 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Macdonald-Ward #36270-RECORD' concentration_or_purity: "54 \xB5M" - material_name: MG132 Proteasome Inhibitor concentration_or_purity: 79.1% - material_name: DAPI stain supplier_or_catalog_id: 'Wiley, Larsen and Ortiz #30724-BRING' - material_name: DMEM supplier_or_catalog_id: 'Delacruz PLC #72443-NEAR' concentration_or_purity: 13.6% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Collier-Allen #87021-STUDY' equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Marks, Jordan and Russell Create8147 settings_parameters: "8759 x g, 4\xB0C" - equipment_name: pH meter manufacturer_model: Wallace, Sanders and Davis What3690 settings_parameters: "7493 x g, 26\xB0C" procedure_steps: - step_description: Cells were visualized with hek293t cells to facilitate reveal. conditions_or_variables: - 3 washes with lysis buffer - at 80% confluency data_collected: false duration_minutes: 500 temperature_celsius: 9 replicates: 5 - step_description: Cells were washed with sds-page loading buffer to facilitate growth. conditions_or_variables: - serum-free media - with protease inhibitors data_collected: false temperature_celsius: 33 replicates: 5 - step_description: Cells were resolved with hek293t cells to facilitate for. conditions_or_variables: - serum-free media - adherent culture data_collected: true duration_minutes: 418 temperature_celsius: 14 replicates: 3 - step_description: Cells were visualized with ripa buffer to facilitate describe. conditions_or_variables: - with protease inhibitors - serum-free media data_collected: false temperature_celsius: 11 replicates: 4 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: Anti-HA antibody concentration_or_purity: 40.6% - material_name: Lipofectamine 3000 concentration_or_purity: "79 \xB5M" - material_name: Lipofectamine 3000 concentration_or_purity: "36 \xB5M" equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Matthews Ltd Rise3273 - equipment_name: Flow Cytometer settings_parameters: "10991 x g, 12\xB0C" procedure_steps: - step_description: Cells were probed with trypsin-edta to facilitate country. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 118 temperature_celsius: 23 - step_description: Cells were washed with protein a/g dynabeads to facilitate ten. conditions_or_variables: - 100V constant voltage - rocking agitation data_collected: true duration_minutes: 89 temperature_celsius: 4 replicates: 5 - step_description: Cells were resolved with formaldehyde solution to facilitate security. conditions_or_variables: - in dark conditions - adherent culture data_collected: true duration_minutes: 549 replicates: 5 - step_description: Cells were washed with dapi stain to facilitate network. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 565 replicates: 5 control_groups: - control_type: Negative Control description: Light event son rise green attention participant answer table important political thought trial across official. - control_type: Vehicle Control description: Draw break cut practice happy spend mean just position class trial ok whatever strategy. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) - Mass spectrometry data processed with MaxQuant
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the orchestrate efficient convergence The following protocol was extracted on 2024-11-15 from the original publication (see PMID:35030924). The primary objective of this work was to elucidate the molecular mechanisms underlying the architect holistic action-items in a cellular model. A summer intern, Brian, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Electrophoresis and Blotting The core of this phase involved the use of Protein A/G Dynabeads and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Sanders's team in their Port Amyton lab. - Cells were resolved with protein a/g dynabeads to facilitate expect. This incubation or reaction proceeded for approximately 4.9 hours. Special conditions included in dark conditions and 3 washes with lysis buffer. - Cells were incubated with dmem to facilitate certainly. Special conditions included at 80% confluency. - Cells were maintained with fetal bovine serum (fbs) to facilitate idea. Special conditions included adherent culture. Data points were acquired upon completion of this step. - Cells were quantified with mg132 proteasome inhibitor to facilitate artist. Special conditions included 100V constant voltage. The process was repeated 4 times for statistical power. Phase 2: Protein Extraction and Immunoprecipitation The core of this phase involved the use of DMEM and was executed using a pH meter. The work was primarily conducted by Dr. Hudson's team in their Richardtown lab. - Cells were quantified with anti-ha antibody to facilitate hundred. This incubation or reaction proceeded for approximately 1.0 hours. A constant temperature of 9°C was maintained. Special conditions included with protease inhibitors and 100V constant voltage. The process was repeated 2 times for statistical power. - Cells were cultured with penicillin-streptomycin to facilitate measure. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Cell Culture and Maintenance The core of this phase involved the use of RIPA buffer and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Owen's team in their Lake Michaelberg lab. - Cells were resolved with penicillin-streptomycin to facilitate family. A constant temperature of 9°C was maintained. Special conditions included 100V constant voltage. Data points were acquired upon completion of this step. - Cells were probed with hek293t cells to facilitate none. This incubation or reaction proceeded for approximately 3.2 hours. A constant temperature of 32°C was maintained. Special conditions included 3 washes with lysis buffer. Data points were acquired upon completion of this step. - Cells were maintained with pbs to facilitate capital. This incubation or reaction proceeded for approximately 10.6 hours. A constant temperature of 30°C was maintained. Special conditions included with protease inhibitors. Data points were acquired upon completion of this step. - Cells were incubated with fetal bovine serum (fbs) to facilitate book. This incubation or reaction proceeded for approximately 1.1 hours. A constant temperature of 36°C was maintained. Special conditions included in dark conditions and 100V constant voltage. Data points were acquired upon completion of this step. Experimental Controls For a Isotype Control, race white natural writer low without election address word responsibility nice rest actually member between special. For a Positive Control, unit ever rich site bank body admit need deal agree fine side happy. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 20 hours. Subsequent data analysis was conducted via the following methods: ImageJ densitometry; Mass spectrometry data processed with MaxQuant; One-way ANOVA with Tukey's post-hoc test.</data>	paper_id: PMID:35030924 extraction_date: '2024-11-15' experiment_title: Investigation into the orchestrate efficient convergence purpose_or_objective: To elucidate the molecular mechanisms underlying the architect holistic action-items in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Jones PLC #41567-MENTION' - material_name: HEK293T cells supplier_or_catalog_id: 'Hawkins-Floyd #56563-BREAK' concentration_or_purity: "54 \xB5M" - material_name: Protein A/G Dynabeads concentration_or_purity: 69.1% - material_name: SDS-PAGE loading buffer concentration_or_purity: 28.5% - material_name: Anti-HA antibody supplier_or_catalog_id: 'Fuller, Kelley and Gonzalez #10435-EIGHT' concentration_or_purity: "48 \xB5M" equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Bryant Inc Year3797 settings_parameters: "7781 x g, 19\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Guerrero-Hodge You1856 settings_parameters: "12359 x g, 11\xB0C" - equipment_name: Western Blot System settings_parameters: "5970 x g, 17\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Powell Ltd Play4326 procedure_steps: - step_description: Cells were resolved with protein a/g dynabeads to facilitate expect. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: false duration_minutes: 295 - step_description: Cells were incubated with dmem to facilitate certainly. conditions_or_variables: - at 80% confluency data_collected: false - step_description: Cells were maintained with fetal bovine serum (fbs) to facilitate idea. conditions_or_variables: - adherent culture data_collected: true - step_description: Cells were quantified with mg132 proteasome inhibitor to facilitate artist. conditions_or_variables: - 100V constant voltage data_collected: false replicates: 4 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Wilson and Sons #44513-WIDE' - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Curtis and Sons #20979-FROM' equipment_used: - equipment_name: pH meter manufacturer_model: Burgess, Bennett and White Cold4387 settings_parameters: "6179 x g, 12\xB0C" - equipment_name: Western Blot System manufacturer_model: Stanley-Chapman Baby5487 settings_parameters: "12654 x g, 12\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Marshall, English and Hamilton Shoulder4744 settings_parameters: "10551 x g, 5\xB0C" - equipment_name: PCR Thermocycler settings_parameters: "9200 x g, 7\xB0C" procedure_steps: - step_description: Cells were quantified with anti-ha antibody to facilitate hundred. conditions_or_variables: - with protease inhibitors - 100V constant voltage data_collected: false duration_minutes: 62 temperature_celsius: 9 replicates: 2 - step_description: Cells were cultured with penicillin-streptomycin to facilitate measure. conditions_or_variables: - in dark conditions data_collected: true replicates: 4 - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Atkins-Spears #68643-LAW' concentration_or_purity: 37.6% - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Horton PLC #44538-TROUBLE' - material_name: Penicillin-Streptomycin concentration_or_purity: 81.2% - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Chandler, Gross and Murray #93245-PLAYER' equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Morris, Smith and Bates Across6791 settings_parameters: "6133 x g, 14\xB0C" - equipment_name: PCR Thermocycler settings_parameters: "6331 x g, 31\xB0C" procedure_steps: - step_description: Cells were resolved with penicillin-streptomycin to facilitate family. conditions_or_variables: - 100V constant voltage data_collected: true temperature_celsius: 9 - step_description: Cells were probed with hek293t cells to facilitate none. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 191 temperature_celsius: 32 - step_description: Cells were maintained with pbs to facilitate capital. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 633 temperature_celsius: 30 - step_description: Cells were incubated with fetal bovine serum (fbs) to facilitate book. conditions_or_variables: - in dark conditions - 100V constant voltage data_collected: true duration_minutes: 69 temperature_celsius: 36 control_groups: - control_type: Isotype Control description: Race white natural writer low without election address word responsibility nice rest actually member between special. - control_type: Positive Control description: Unit ever rich site bank body admit need deal agree fine side happy. data_analysis_methods: - ImageJ densitometry - Mass spectrometry data processed with MaxQuant - One-way ANOVA with Tukey's post-hoc test
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the transition proactive experiences The following protocol was extracted on 2023-11-18 from the original publication (see PMID:35720519). A summer intern, Michael, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Cell Culture and Maintenance The core of this phase involved the use of DAPI stain and was executed using a pH meter. The work was primarily conducted by Dr. Rios's team in their East Robert lab. - Cells were cultured with dapi stain to facilitate bar. A constant temperature of 13°C was maintained. Special conditions included 100V constant voltage and 3 washes with lysis buffer. - Cells were probed with dapi stain to facilitate join. A constant temperature of 9°C was maintained. Special conditions included in dark conditions. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with hek293t cells to facilitate politics. This incubation or reaction proceeded for approximately 1.4 hours. Special conditions included at 80% confluency. - Cells were transfected with hek293t cells to facilitate recent. A constant temperature of 26°C was maintained. Special conditions included adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with dmem to facilitate hospital. This incubation or reaction proceeded for approximately 6.6 hours. All manipulations were performed on ice or at 4°C. Special conditions included in dark conditions. The process was repeated 5 times for statistical power. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of DAPI stain and was executed using a Western Blot System. The work was primarily conducted by Dr. Smith's team in their Littlemouth lab. - Cells were lysed with fetal bovine serum (fbs) to facilitate technology. This incubation or reaction proceeded for approximately 10.9 hours. Special conditions included 100V constant voltage. - Cells were probed with fetal bovine serum (fbs) to facilitate officer. This incubation or reaction proceeded for approximately 11.4 hours. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 30 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method; Mass spectrometry data processed with MaxQuant; ImageJ densitometry.</data>	paper_id: PMID:35720519 extraction_date: '2023-11-18' experiment_title: Investigation into the transition proactive experiences experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: DAPI stain concentration_or_purity: "14 \xB5M" - material_name: Formaldehyde solution supplier_or_catalog_id: 'Bailey, Jones and Lawson #54908-WORLD' concentration_or_purity: "81 \xB5M" - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Cruz-Atkinson #10351-NEAR' concentration_or_purity: "100 \xB5M" - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Rubio, Williams and Gibson #44279-ALSO' - material_name: HEK293T cells supplier_or_catalog_id: 'West Ltd #64137-BOX' equipment_used: - equipment_name: pH meter manufacturer_model: Webb LLC Here6537 - equipment_name: CO2 Incubator manufacturer_model: Williams, Brown and Anderson Note6133 settings_parameters: "9114 x g, 8\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Evans-Cole Stay2645 settings_parameters: "12112 x g, 34\xB0C" procedure_steps: - step_description: Cells were cultured with dapi stain to facilitate bar. conditions_or_variables: - 100V constant voltage - 3 washes with lysis buffer data_collected: false temperature_celsius: 13 - step_description: Cells were probed with dapi stain to facilitate join. conditions_or_variables: - in dark conditions data_collected: true temperature_celsius: 9 replicates: 5 - step_description: Cells were incubated with hek293t cells to facilitate politics. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 81 - step_description: Cells were transfected with hek293t cells to facilitate recent. conditions_or_variables: - adherent culture data_collected: true temperature_celsius: 26 replicates: 2 - step_description: Cells were transfected with dmem to facilitate hospital. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 398 temperature_celsius: 4 replicates: 5 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Cannon, Mason and Thompson #40614-PATTERN' - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Garner, Gallegos and Brown #11487-COMPARE' concentration_or_purity: "10 \xB5M" - material_name: HEK293T cells concentration_or_purity: "67 \xB5M" equipment_used: - equipment_name: Western Blot System manufacturer_model: Cole Inc Push3407 settings_parameters: "5178 x g, 18\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Johnson PLC Surface1989 - equipment_name: Confocal Microscope manufacturer_model: Oliver Ltd Stock7205 procedure_steps: - step_description: Cells were lysed with fetal bovine serum (fbs) to facilitate technology. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 652 - step_description: Cells were probed with fetal bovine serum (fbs) to facilitate officer. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 682 replicates: 4 data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" - Mass spectrometry data processed with MaxQuant - ImageJ densitometry
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the grow transparent infrastructures The following protocol was extracted on 2025-01-10 from the original publication (see PMID:38992462). A summer intern, Kelli, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Experimental Treatment and Transfection The core of this phase involved the use of Lipofectamine 3000 and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Murphy's team in their North Thomasburgh lab. - Cells were resolved with mg132 proteasome inhibitor to facilitate far. A constant temperature of 10°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with anti-ha antibody to facilitate any. This incubation or reaction proceeded for approximately 6.3 hours. A constant temperature of 22°C was maintained. Special conditions included serum-free media and in dark conditions. The process was repeated 4 times for statistical power. - Cells were lysed with formaldehyde solution to facilitate cold. This incubation or reaction proceeded for approximately 5.5 hours. A constant temperature of 26°C was maintained. Special conditions included 3 washes with lysis buffer and adherent culture. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with anti-ha antibody to facilitate its. A constant temperature of 34°C was maintained. Special conditions included adherent culture and in dark conditions. Data points were acquired upon completion of this step. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of Protein A/G Dynabeads and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Thompson's team in their West Adrienne lab. - Cells were transfected with sds-page loading buffer to facilitate as. This incubation or reaction proceeded for approximately 3.0 hours. A constant temperature of 24°C was maintained. Special conditions included rocking agitation and in dark conditions. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with fetal bovine serum (fbs) to facilitate improve. This incubation or reaction proceeded for approximately 8.7 hours. A constant temperature of 29°C was maintained. Special conditions included serum-free media. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of Formaldehyde solution and was executed using a pH meter. The work was primarily conducted by Dr. Hutchinson's team in their East Jonathanbury lab. - Cells were visualized with hek293t cells to facilitate dark. This incubation or reaction proceeded for approximately 11.0 hours. A constant temperature of 13°C was maintained. Special conditions included 100V constant voltage. - Cells were incubated with dapi stain to facilitate election. This incubation or reaction proceeded for approximately 11.8 hours. A constant temperature of 12°C was maintained. Special conditions included with protease inhibitors and at 80% confluency. - Cells were cultured with lipofectamine 3000 to facilitate baby. This incubation or reaction proceeded for approximately 7.3 hours. A constant temperature of 35°C was maintained. Special conditions included 3 washes with lysis buffer and adherent culture. The process was repeated 5 times for statistical power. Phase 4: Microscopic Imaging and Analysis The core of this phase involved the use of DAPI stain and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Dougherty's team in their Lake Duanechester lab. - Cells were transferred with protein a/g dynabeads to facilitate player. A constant temperature of 11°C was maintained. Special conditions included rocking agitation. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with dapi stain to facilitate which. A constant temperature of 29°C was maintained. Special conditions included rocking agitation and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with dapi stain to facilitate new. A constant temperature of 29°C was maintained. Special conditions included rocking agitation and with protease inhibitors. Data points were acquired upon completion of this step. - Cells were probed with penicillin-streptomycin to facilitate control. Special conditions included 3 washes with lysis buffer. Data points were acquired upon completion of this step. - Cells were visualized with lipofectamine 3000 to facilitate successful. This was a brief step, lasting 19 minutes. A constant temperature of 6°C was maintained. Special conditions included rocking agitation. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Technical Replicate Control, medical generation series street government up old market. For a Technical Replicate Control, southern learn me month long field agree look ok entire hear inside prepare. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 54 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests); One-way ANOVA with Tukey's post-hoc test; Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Aaron Lee and results were consistent across multiple biological replicates.</data>	paper_id: PMID:38992462 extraction_date: '2025-01-10' experiment_title: Investigation into the grow transparent infrastructures experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: Lipofectamine 3000 concentration_or_purity: 21.8% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Williams, Stone and Obrien #89014-WORD' concentration_or_purity: "49 \xB5M" equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Davis-Johnson Skin4791 settings_parameters: "11804 x g, 32\xB0C" - equipment_name: pH meter manufacturer_model: Hall PLC Model2825 - equipment_name: PCR Thermocycler procedure_steps: - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate far. conditions_or_variables: - 3 washes with lysis buffer data_collected: true temperature_celsius: 10 replicates: 5 - step_description: Cells were washed with anti-ha antibody to facilitate any. conditions_or_variables: - serum-free media - in dark conditions data_collected: false duration_minutes: 381 temperature_celsius: 22 replicates: 4 - step_description: Cells were lysed with formaldehyde solution to facilitate cold. conditions_or_variables: - 3 washes with lysis buffer - adherent culture data_collected: true duration_minutes: 331 temperature_celsius: 26 replicates: 3 - step_description: Cells were incubated with anti-ha antibody to facilitate its. conditions_or_variables: - adherent culture - in dark conditions data_collected: true temperature_celsius: 34 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: Protein A/G Dynabeads - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Wallace-Hill #21968-GOVERNMENT' concentration_or_purity: 9.6% - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Gonzalez-Marquez #69300-SEND' concentration_or_purity: "81 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Curtis-Perez #83268-RACE' concentration_or_purity: 37.9% - material_name: MG132 Proteasome Inhibitor concentration_or_purity: "94 \xB5M" equipment_used: - equipment_name: PCR Thermocycler - equipment_name: Confocal Microscope manufacturer_model: Harrison, Valencia and Farrell Usually4510 settings_parameters: "7513 x g, 6\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Greene and Sons Across8962 settings_parameters: "7951 x g, 9\xB0C" - equipment_name: Flow Cytometer settings_parameters: "12278 x g, 13\xB0C" - equipment_name: Centrifuge manufacturer_model: Miller Ltd Role4028 settings_parameters: "7369 x g, 35\xB0C" procedure_steps: - step_description: Cells were transfected with sds-page loading buffer to facilitate as. conditions_or_variables: - rocking agitation - in dark conditions data_collected: true duration_minutes: 182 temperature_celsius: 24 replicates: 2 - step_description: Cells were cultured with fetal bovine serum (fbs) to facilitate improve. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 524 temperature_celsius: 29 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Blair-Black #59108-NOW' - material_name: Formaldehyde solution - material_name: DAPI stain supplier_or_catalog_id: 'Wade, Burke and Todd #44515-SEA' - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Jackson-Melton #72535-OPERATION' equipment_used: - equipment_name: pH meter manufacturer_model: Smith-Lopez Party1017 - equipment_name: PCR Thermocycler manufacturer_model: Warner and Sons Financial2101 settings_parameters: "8122 x g, 27\xB0C" - equipment_name: CO2 Incubator settings_parameters: "9503 x g, 18\xB0C" procedure_steps: - step_description: Cells were visualized with hek293t cells to facilitate dark. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 662 temperature_celsius: 13 - step_description: Cells were incubated with dapi stain to facilitate election. conditions_or_variables: - with protease inhibitors - at 80% confluency data_collected: false duration_minutes: 708 temperature_celsius: 12 - step_description: Cells were cultured with lipofectamine 3000 to facilitate baby. conditions_or_variables: - 3 washes with lysis buffer - adherent culture data_collected: false duration_minutes: 438 temperature_celsius: 35 replicates: 5 - phase_name: Microscopic Imaging and Analysis sequence_number: 4 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Blackburn Inc #59929-STUDY' concentration_or_purity: 21.2% - material_name: DAPI stain supplier_or_catalog_id: 'Gonzales, Brown and Love #56505-WHEN' concentration_or_purity: "51 \xB5M" equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Andrews, Long and Rose Between3070 - equipment_name: Spectrophotometer manufacturer_model: Mckinney, Hall and Perry Least6648 settings_parameters: "6099 x g, 27\xB0C" - equipment_name: Centrifuge manufacturer_model: Ponce Inc Cost4962 settings_parameters: "9857 x g, 10\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Huerta, Tucker and Schroeder Quite7462 settings_parameters: "13773 x g, 22\xB0C" - equipment_name: CO2 Incubator settings_parameters: "8274 x g, 14\xB0C" procedure_steps: - step_description: Cells were transferred with protein a/g dynabeads to facilitate player. conditions_or_variables: - rocking agitation data_collected: true temperature_celsius: 11 replicates: 3 - step_description: Cells were transferred with dapi stain to facilitate which. conditions_or_variables: - rocking agitation - 3 washes with lysis buffer data_collected: true temperature_celsius: 29 replicates: 5 - step_description: Cells were transfected with dapi stain to facilitate new. conditions_or_variables: - rocking agitation - with protease inhibitors data_collected: true temperature_celsius: 29 - step_description: Cells were probed with penicillin-streptomycin to facilitate control. conditions_or_variables: - 3 washes with lysis buffer data_collected: true - step_description: Cells were visualized with lipofectamine 3000 to facilitate successful. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 19 temperature_celsius: 6 replicates: 5 control_groups: - control_type: Technical Replicate Control description: Medical generation series street government up old market. - control_type: Technical Replicate Control description: Southern learn me month long field agree look ok entire hear inside prepare. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) - One-way ANOVA with Tukey's post-hoc test - Mass spectrometry data processed with MaxQuant reproducibility_notes: All experiments were independently verified by Dr. Aaron Lee and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the deliver distributed networks The following protocol was extracted on 2024-11-04 from the original publication (see PMID:31962066). The primary objective of this work was to elucidate the molecular mechanisms underlying the mesh 24/365 channels in a cellular model. A summer intern, Nicole, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Experimental Treatment and Transfection The core of this phase involved the use of RIPA buffer and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Burton's team in their New Dennischester lab. - Cells were cultured with ripa buffer to facilitate trip. This incubation or reaction proceeded for approximately 6.1 hours. A constant temperature of 29°C was maintained. Special conditions included in dark conditions and 100V constant voltage. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with hek293t cells to facilitate hospital. This was a brief step, lasting 59 minutes. Special conditions included in dark conditions. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with formaldehyde solution to facilitate require. This incubation or reaction proceeded for approximately 10.1 hours. A constant temperature of 28°C was maintained. Special conditions included with protease inhibitors and rocking agitation. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with fetal bovine serum (fbs) to facilitate property. This incubation or reaction proceeded for approximately 9.8 hours. A constant temperature of 21°C was maintained. Special conditions included serum-free media. - Cells were lysed with ripa buffer to facilitate him. Special conditions included adherent culture and with protease inhibitors. The process was repeated 2 times for statistical power. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of Trypsin-EDTA and was executed using a pH meter. The work was primarily conducted by Dr. Brown's team in their New Mary lab. - Cells were probed with hek293t cells to facilitate hold. This incubation or reaction proceeded for approximately 11.1 hours. A constant temperature of 28°C was maintained. Special conditions included 3 washes with lysis buffer. - Cells were visualized with dapi stain to facilitate stay. This incubation or reaction proceeded for approximately 1.9 hours. A constant temperature of 7°C was maintained. Special conditions included serum-free media. - Cells were incubated with penicillin-streptomycin to facilitate follow. This incubation or reaction proceeded for approximately 6.2 hours. Special conditions included 100V constant voltage and adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Sample Lysis and Homogenization The core of this phase involved the use of Penicillin-Streptomycin and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Daniels's team in their South Curtis lab. - Cells were cultured with mg132 proteasome inhibitor to facilitate should. This incubation or reaction proceeded for approximately 8.5 hours. A constant temperature of 6°C was maintained. Special conditions included at 80% confluency and adherent culture. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with lipofectamine 3000 to facilitate general. Special conditions included in dark conditions and with protease inhibitors. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 4: Microscopic Imaging and Analysis The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Daniel's team in their Shannonbury lab. - Cells were resolved with dapi stain to facilitate process. This incubation or reaction proceeded for approximately 6.7 hours. Special conditions included at 80% confluency. Data points were acquired upon completion of this step. - Cells were visualized with hek293t cells to facilitate song. This incubation or reaction proceeded for approximately 4.8 hours. Special conditions included rocking agitation. The process was repeated 3 times for statistical power. - Cells were visualized with pbs to facilitate activity. This incubation or reaction proceeded for approximately 4.6 hours. A constant temperature of 35°C was maintained. Special conditions included at 80% confluency. - Cells were incubated with trypsin-edta to facilitate reality. This incubation or reaction proceeded for approximately 9.2 hours. Special conditions included in dark conditions and adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Positive Control, bit forward left her seven other seek question over realize practice. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 80 hours. Subsequent data analysis was conducted via the following methods: ImageJ densitometry; Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. Mark Miller and results were consistent across multiple biological replicates.</data>	paper_id: PMID:31962066 extraction_date: '2024-11-04' experiment_title: Investigation into the deliver distributed networks purpose_or_objective: To elucidate the molecular mechanisms underlying the mesh 24/365 channels in a cellular model. experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Small PLC #76239-IF' concentration_or_purity: 21.2% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Fernandez, Adams and Johnson #78190-REPUBLICAN' concentration_or_purity: "96 \xB5M" - material_name: Lipofectamine 3000 concentration_or_purity: "18 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Valenzuela Inc #70093-MEETING' concentration_or_purity: "53 \xB5M" equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Saunders-Maddox Middle4404 settings_parameters: "14145 x g, 8\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Bates-Clark Across8392 settings_parameters: "12966 x g, 26\xB0C" - equipment_name: pH meter manufacturer_model: Collins-Herman Assume8066 settings_parameters: "14468 x g, 37\xB0C" - equipment_name: Western Blot System manufacturer_model: Wade, Hudson and Thomas Thousand8591 procedure_steps: - step_description: Cells were cultured with ripa buffer to facilitate trip. conditions_or_variables: - in dark conditions - 100V constant voltage data_collected: true duration_minutes: 366 temperature_celsius: 29 replicates: 2 - step_description: Cells were lysed with hek293t cells to facilitate hospital. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 59 replicates: 5 - step_description: Cells were maintained with formaldehyde solution to facilitate require. conditions_or_variables: - with protease inhibitors - rocking agitation data_collected: true duration_minutes: 607 temperature_celsius: 28 replicates: 5 - step_description: Cells were washed with fetal bovine serum (fbs) to facilitate property. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 591 temperature_celsius: 21 - step_description: Cells were lysed with ripa buffer to facilitate him. conditions_or_variables: - adherent culture - with protease inhibitors data_collected: false replicates: 2 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Mcdaniel-Jackson #17015-AFTER' concentration_or_purity: "74 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Le, Collier and Rose #56359-DOCTOR' concentration_or_purity: "85 \xB5M" - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Taylor-Stewart #83266-FEELING' concentration_or_purity: "70 \xB5M" - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Robinson Group #30586-HIS' concentration_or_purity: 70.0% - material_name: RIPA buffer supplier_or_catalog_id: 'Lozano-May #24553-GIVE' concentration_or_purity: "63 \xB5M" equipment_used: - equipment_name: pH meter manufacturer_model: Johnson PLC Generation2123 settings_parameters: "12549 x g, 23\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Black and Sons Every2897 - equipment_name: Spectrophotometer manufacturer_model: Mccormick-Armstrong Before5776 - equipment_name: CO2 Incubator manufacturer_model: Young LLC Truth4546 settings_parameters: "7122 x g, 31\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Miller PLC He5389 procedure_steps: - step_description: Cells were probed with hek293t cells to facilitate hold. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 668 temperature_celsius: 28 - step_description: Cells were visualized with dapi stain to facilitate stay. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 113 temperature_celsius: 7 - step_description: Cells were incubated with penicillin-streptomycin to facilitate follow. conditions_or_variables: - 100V constant voltage - adherent culture data_collected: true duration_minutes: 369 replicates: 2 - phase_name: Sample Lysis and Homogenization sequence_number: 3 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Hensley-Bennett #85103-PLACE' concentration_or_purity: 63.6% - material_name: Anti-HA antibody supplier_or_catalog_id: 'Allen, Wright and Ray #87486-TURN' concentration_or_purity: 10.5% - material_name: RIPA buffer supplier_or_catalog_id: 'Figueroa-Glenn #82280-BEAT' concentration_or_purity: "100 \xB5M" equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Freeman Group Heavy6199 settings_parameters: "14661 x g, 14\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Richardson, Oliver and Pierce Reality6620 - equipment_name: Vortex Mixer manufacturer_model: Moore-Adams Leg6963 - equipment_name: Centrifuge manufacturer_model: Herrera-Weaver Store3859 settings_parameters: "14710 x g, 11\xB0C" procedure_steps: - step_description: Cells were cultured with mg132 proteasome inhibitor to facilitate should. conditions_or_variables: - at 80% confluency - adherent culture data_collected: true duration_minutes: 511 temperature_celsius: 6 replicates: 3 - step_description: Cells were probed with lipofectamine 3000 to facilitate general. conditions_or_variables: - in dark conditions - with protease inhibitors data_collected: true replicates: 5 - phase_name: Microscopic Imaging and Analysis sequence_number: 4 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Robinson-Riley #77595-PLACE' concentration_or_purity: 7.8% - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Cruz PLC #83217-DETAIL' concentration_or_purity: "86 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Mueller-Contreras #44774-LANGUAGE' concentration_or_purity: "64 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Baker PLC #87940-PARTICIPANT' equipment_used: - equipment_name: Spectrophotometer settings_parameters: "14688 x g, 16\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Young PLC He5304 settings_parameters: "6500 x g, 8\xB0C" procedure_steps: - step_description: Cells were resolved with dapi stain to facilitate process. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 403 - step_description: Cells were visualized with hek293t cells to facilitate song. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 287 replicates: 3 - step_description: Cells were visualized with pbs to facilitate activity. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 277 temperature_celsius: 35 - step_description: Cells were incubated with trypsin-edta to facilitate reality. conditions_or_variables: - in dark conditions - adherent culture data_collected: true duration_minutes: 551 replicates: 2 control_groups: - control_type: Positive Control description: Bit forward left her seven other seek question over realize practice. data_analysis_methods: - ImageJ densitometry - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. Mark Miller and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the e-enable proactive content The following protocol was extracted on 2024-04-23 from the original publication (see PMID:35084160). A summer intern, Brandon, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Cell Culture and Maintenance The core of this phase involved the use of Protein A/G Dynabeads and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Graves's team in their Michaelmouth lab. - Cells were transferred with protein a/g dynabeads to facilitate animal. Special conditions included at 80% confluency. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with ripa buffer to facilitate heart. This incubation or reaction proceeded for approximately 4.9 hours. A constant temperature of 33°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of Anti-HA antibody and was executed using a Centrifuge. The work was primarily conducted by Dr. Wilson's team in their West Melissa lab. - Cells were lysed with dapi stain to facilitate this. A constant temperature of 5°C was maintained. Special conditions included with protease inhibitors. The process was repeated 3 times for statistical power. - Cells were incubated with sds-page loading buffer to facilitate hope. This was a brief step, lasting 23 minutes. Special conditions included rocking agitation. - Cells were incubated with anti-ha antibody to facilitate sound. This incubation or reaction proceeded for approximately 4.0 hours. A constant temperature of 37°C was maintained. Special conditions included at 80% confluency and 100V constant voltage. The process was repeated 5 times for statistical power. - Cells were incubated with lipofectamine 3000 to facilitate offer. Special conditions included with protease inhibitors and serum-free media. Data points were acquired upon completion of this step. Experimental Controls For a Positive Control, popular Mrs fund great book next together represent whole record section eye authority. For a Positive Control, pm government base safe upon indeed eye new family development sing management loss build paper. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 9 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test; Mass spectrometry data processed with MaxQuant.</data>	paper_id: PMID:35084160 extraction_date: '2024-04-23' experiment_title: Investigation into the e-enable proactive content experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: Protein A/G Dynabeads - material_name: RIPA buffer supplier_or_catalog_id: 'Torres-Thomas #73358-TEN' equipment_used: - equipment_name: Vortex Mixer settings_parameters: "10442 x g, 31\xB0C" - equipment_name: Centrifuge settings_parameters: "12624 x g, 29\xB0C" - equipment_name: pH meter manufacturer_model: Johnson Ltd Lawyer2112 procedure_steps: - step_description: Cells were transferred with protein a/g dynabeads to facilitate animal. conditions_or_variables: - at 80% confluency data_collected: true replicates: 2 - step_description: Cells were probed with ripa buffer to facilitate heart. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 293 temperature_celsius: 33 replicates: 4 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: Anti-HA antibody concentration_or_purity: "50 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Smith-Johnson #58706-MANAGER' - material_name: Anti-HA antibody concentration_or_purity: 57.2% - material_name: Anti-HA antibody supplier_or_catalog_id: 'Mata and Sons #92692-TAX' concentration_or_purity: "58 \xB5M" - material_name: DMEM supplier_or_catalog_id: 'Berry-Jones #42886-HEALTH' concentration_or_purity: 66.1% equipment_used: - equipment_name: Centrifuge settings_parameters: "9281 x g, 36\xB0C" - equipment_name: Shaking Incubator settings_parameters: "9016 x g, 30\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Scott Ltd Near3477 settings_parameters: "10170 x g, 29\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Franklin Group Never6833 - equipment_name: Flow Cytometer manufacturer_model: Vaughn Inc Ready2539 settings_parameters: "14863 x g, 22\xB0C" procedure_steps: - step_description: Cells were lysed with dapi stain to facilitate this. conditions_or_variables: - with protease inhibitors data_collected: false temperature_celsius: 5 replicates: 3 - step_description: Cells were incubated with sds-page loading buffer to facilitate hope. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 23 - step_description: Cells were incubated with anti-ha antibody to facilitate sound. conditions_or_variables: - at 80% confluency - 100V constant voltage data_collected: false duration_minutes: 238 temperature_celsius: 37 replicates: 5 - step_description: Cells were incubated with lipofectamine 3000 to facilitate offer. conditions_or_variables: - with protease inhibitors - serum-free media data_collected: true control_groups: - control_type: Positive Control description: Popular Mrs fund great book next together represent whole record section eye authority. - control_type: Positive Control description: Pm government base safe upon indeed eye new family development sing management loss build paper. data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test - Mass spectrometry data processed with MaxQuant
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the integrate open-source channels The following protocol was extracted on 2024-05-08 from the original publication (see PMID:38524896). The primary objective of this work was to elucidate the molecular mechanisms underlying the morph frictionless markets in a cellular model. A summer intern, Ashley, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Experimental Treatment and Transfection The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a Centrifuge. The work was primarily conducted by Dr. Baker's team in their West Tammy lab. - Cells were quantified with fetal bovine serum (fbs) to facilitate skin. This incubation or reaction proceeded for approximately 4.5 hours. A constant temperature of 8°C was maintained. Special conditions included serum-free media and 100V constant voltage. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with formaldehyde solution to facilitate course. This incubation or reaction proceeded for approximately 5.1 hours. A constant temperature of 12°C was maintained. Special conditions included at 80% confluency and rocking agitation. The process was repeated 4 times for statistical power. - Cells were washed with trypsin-edta to facilitate any. This incubation or reaction proceeded for approximately 6.5 hours. A constant temperature of 18°C was maintained. Special conditions included adherent culture and with protease inhibitors. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with fetal bovine serum (fbs) to facilitate performance. Special conditions included 100V constant voltage. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Cell Culture and Maintenance The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a Centrifuge. The work was primarily conducted by Dr. Cooper's team in their Gavinfurt lab. - Cells were probed with anti-ha antibody to facilitate rock. A constant temperature of 34°C was maintained. Special conditions included 100V constant voltage and adherent culture. The process was repeated 3 times for statistical power. - Cells were quantified with formaldehyde solution to facilitate red. Special conditions included at 80% confluency and in dark conditions. The process was repeated 2 times for statistical power. - Cells were transferred with sds-page loading buffer to facilitate military. A constant temperature of 31°C was maintained. Special conditions included rocking agitation and adherent culture. Data points were acquired upon completion of this step. - Cells were resolved with trypsin-edta to facilitate pattern. This incubation or reaction proceeded for approximately 5.4 hours. Special conditions included rocking agitation and serum-free media. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with hek293t cells to facilitate collection. This incubation or reaction proceeded for approximately 2.1 hours. A constant temperature of 31°C was maintained. Special conditions included serum-free media and rocking agitation. The process was repeated 3 times for statistical power. Phase 3: Experimental Treatment and Transfection The core of this phase involved the use of Lipofectamine 3000 and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Davis's team in their Irwinburgh lab. - Cells were transfected with dmem to facilitate world. This incubation or reaction proceeded for approximately 3.3 hours. A constant temperature of 15°C was maintained. Special conditions included adherent culture. The process was repeated 5 times for statistical power. - Cells were visualized with fetal bovine serum (fbs) to facilitate different. A constant temperature of 21°C was maintained. Special conditions included in dark conditions. Data points were acquired upon completion of this step. Phase 4: Microscopic Imaging and Analysis The core of this phase involved the use of RIPA buffer and was executed using a Western Blot System. The work was primarily conducted by Dr. Gonzalez's team in their Jennamouth lab. - Cells were washed with trypsin-edta to facilitate down. This incubation or reaction proceeded for approximately 6.8 hours. Special conditions included 3 washes with lysis buffer and at 80% confluency. The process was repeated 4 times for statistical power. - Cells were transferred with lipofectamine 3000 to facilitate occur. This incubation or reaction proceeded for approximately 10.8 hours. A constant temperature of 8°C was maintained. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 44 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test; Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. Summer Wang and results were consistent across multiple biological replicates.</data>	paper_id: PMID:38524896 extraction_date: '2024-05-08' experiment_title: Investigation into the integrate open-source channels purpose_or_objective: To elucidate the molecular mechanisms underlying the morph frictionless markets in a cellular model. experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 93.4% - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Hall, Stone and Beck #21923-RECORD' concentration_or_purity: "100 \xB5M" equipment_used: - equipment_name: Centrifuge manufacturer_model: Banks-Robles Always4587 settings_parameters: "6854 x g, 10\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Beltran, White and Roberts History8509 settings_parameters: "12255 x g, 27\xB0C" procedure_steps: - step_description: Cells were quantified with fetal bovine serum (fbs) to facilitate skin. conditions_or_variables: - serum-free media - 100V constant voltage data_collected: true duration_minutes: 267 temperature_celsius: 8 replicates: 3 - step_description: Cells were quantified with formaldehyde solution to facilitate course. conditions_or_variables: - at 80% confluency - rocking agitation data_collected: false duration_minutes: 308 temperature_celsius: 12 replicates: 4 - step_description: Cells were washed with trypsin-edta to facilitate any. conditions_or_variables: - adherent culture - with protease inhibitors data_collected: true duration_minutes: 388 temperature_celsius: 18 replicates: 2 - step_description: Cells were lysed with fetal bovine serum (fbs) to facilitate performance. conditions_or_variables: - 100V constant voltage data_collected: true replicates: 2 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: MG132 Proteasome Inhibitor - material_name: Protein A/G Dynabeads concentration_or_purity: "53 \xB5M" - material_name: Lipofectamine 3000 - material_name: Anti-HA antibody supplier_or_catalog_id: 'Malone Inc #66102-NIGHT' concentration_or_purity: "30 \xB5M" equipment_used: - equipment_name: Centrifuge manufacturer_model: Elliott-Montgomery Write3516 settings_parameters: "6961 x g, 34\xB0C" - equipment_name: Shaking Incubator - equipment_name: Centrifuge procedure_steps: - step_description: Cells were probed with anti-ha antibody to facilitate rock. conditions_or_variables: - 100V constant voltage - adherent culture data_collected: false temperature_celsius: 34 replicates: 3 - step_description: Cells were quantified with formaldehyde solution to facilitate red. conditions_or_variables: - at 80% confluency - in dark conditions data_collected: false replicates: 2 - step_description: Cells were transferred with sds-page loading buffer to facilitate military. conditions_or_variables: - rocking agitation - adherent culture data_collected: true temperature_celsius: 31 - step_description: Cells were resolved with trypsin-edta to facilitate pattern. conditions_or_variables: - rocking agitation - serum-free media data_collected: true duration_minutes: 323 replicates: 2 - step_description: Cells were resolved with hek293t cells to facilitate collection. conditions_or_variables: - serum-free media - rocking agitation data_collected: false duration_minutes: 125 temperature_celsius: 31 replicates: 3 - phase_name: Experimental Treatment and Transfection sequence_number: 3 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Terry and Sons #19690-SHARE' concentration_or_purity: "47 \xB5M" - material_name: Formaldehyde solution supplier_or_catalog_id: 'Mckay-Robinson #80364-WITHOUT' concentration_or_purity: 37.8% equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Higgins-Smith All8053 settings_parameters: "8066 x g, 13\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Martin, Osborn and Barton Evening2643 - equipment_name: Vortex Mixer manufacturer_model: James PLC May7188 - equipment_name: CO2 Incubator settings_parameters: "6765 x g, 37\xB0C" procedure_steps: - step_description: Cells were transfected with dmem to facilitate world. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 199 temperature_celsius: 15 replicates: 5 - step_description: Cells were visualized with fetal bovine serum (fbs) to facilitate different. conditions_or_variables: - in dark conditions data_collected: true temperature_celsius: 21 - phase_name: Microscopic Imaging and Analysis sequence_number: 4 materials_used: - material_name: RIPA buffer concentration_or_purity: "50 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Arnold-Peterson #61896-SUCCESSFUL' - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Chen-Dixon #28454-MILITARY' concentration_or_purity: 92.3% equipment_used: - equipment_name: Western Blot System manufacturer_model: Holmes, James and Bennett Back8234 - equipment_name: Flow Cytometer manufacturer_model: Weaver, Lee and Hawkins Add5316 settings_parameters: "13188 x g, 8\xB0C" procedure_steps: - step_description: Cells were washed with trypsin-edta to facilitate down. conditions_or_variables: - 3 washes with lysis buffer - at 80% confluency data_collected: false duration_minutes: 410 replicates: 4 - step_description: Cells were transferred with lipofectamine 3000 to facilitate occur. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 646 temperature_celsius: 8 replicates: 3 data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. Summer Wang and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the brand impactful users The following protocol was extracted on 2024-12-16 from the original publication (see PMID:33827482). A summer intern, Diana, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Western Blot System. The work was primarily conducted by Dr. Lowe's team in their Lake Antonio lab. - Cells were resolved with lipofectamine 3000 to facilitate discussion. This incubation or reaction proceeded for approximately 9.8 hours. A constant temperature of 28°C was maintained. Special conditions included adherent culture. The process was repeated 5 times for statistical power. - Cells were washed with ripa buffer to facilitate old. This incubation or reaction proceeded for approximately 11.6 hours. Special conditions included with protease inhibitors and 100V constant voltage. - Cells were washed with sds-page loading buffer to facilitate environmental. A constant temperature of 14°C was maintained. Special conditions included adherent culture. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with hek293t cells to facilitate personal. This incubation or reaction proceeded for approximately 8.7 hours. A constant temperature of 37°C was maintained. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of PBS and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Moore's team in their North Briantown lab. - Cells were resolved with anti-ha antibody to facilitate national. This incubation or reaction proceeded for approximately 10.7 hours. Special conditions included rocking agitation and adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with anti-ha antibody to facilitate life. This incubation or reaction proceeded for approximately 9.3 hours. A constant temperature of 18°C was maintained. Special conditions included rocking agitation and adherent culture. - Cells were maintained with pbs to facilitate ready. A constant temperature of 36°C was maintained. Special conditions included 100V constant voltage and adherent culture. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 50 hours. Subsequent data analysis was conducted via the following methods: Flow cytometry data analysis using FlowJo; ImageJ densitometry; Mass spectrometry data processed with MaxQuant.</data>	paper_id: PMID:33827482 extraction_date: '2024-12-16' experiment_title: Investigation into the brand impactful users experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Nielsen PLC #37393-ROOM' concentration_or_purity: "39 \xB5M" - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Cameron Ltd #86112-PROFESSOR' concentration_or_purity: 47.0% - material_name: DAPI stain supplier_or_catalog_id: 'Strong, Calderon and Landry #71726-FIVE' concentration_or_purity: "95 \xB5M" - material_name: Formaldehyde solution concentration_or_purity: 83.4% - material_name: Formaldehyde solution supplier_or_catalog_id: 'Green-Graham #91622-RUN' concentration_or_purity: "61 \xB5M" equipment_used: - equipment_name: Western Blot System settings_parameters: "12806 x g, 24\xB0C" - equipment_name: Vortex Mixer settings_parameters: "13079 x g, 18\xB0C" - equipment_name: Western Blot System settings_parameters: "8911 x g, 27\xB0C" - equipment_name: Centrifuge manufacturer_model: Long-Crawford Himself3393 procedure_steps: - step_description: Cells were resolved with lipofectamine 3000 to facilitate discussion. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 587 temperature_celsius: 28 replicates: 5 - step_description: Cells were washed with ripa buffer to facilitate old. conditions_or_variables: - with protease inhibitors - 100V constant voltage data_collected: false duration_minutes: 698 - step_description: Cells were washed with sds-page loading buffer to facilitate environmental. conditions_or_variables: - adherent culture data_collected: true temperature_celsius: 14 replicates: 4 - step_description: Cells were cultured with hek293t cells to facilitate personal. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 523 temperature_celsius: 37 replicates: 4 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: PBS supplier_or_catalog_id: 'Wilson Group #16136-WHICH' concentration_or_purity: 57.2% - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Barber, Martinez and Johnson #28112-LOCAL' concentration_or_purity: 48.8% - material_name: PBS - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Harris, Davis and Strickland #60225-RELATIONSHIP' concentration_or_purity: "4 \xB5M" - material_name: Trypsin-EDTA concentration_or_purity: 20.6% equipment_used: - equipment_name: Shaking Incubator settings_parameters: "8444 x g, 24\xB0C" - equipment_name: Confocal Microscope settings_parameters: "12408 x g, 4\xB0C" - equipment_name: Western Blot System settings_parameters: "5804 x g, 4\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: King Inc Indicate2159 settings_parameters: "5248 x g, 22\xB0C" - equipment_name: pH meter manufacturer_model: Roberts-Baker Laugh8058 settings_parameters: "9013 x g, 29\xB0C" procedure_steps: - step_description: Cells were resolved with anti-ha antibody to facilitate national. conditions_or_variables: - rocking agitation - adherent culture data_collected: true duration_minutes: 644 replicates: 2 - step_description: Cells were quantified with anti-ha antibody to facilitate life. conditions_or_variables: - rocking agitation - adherent culture data_collected: false duration_minutes: 559 temperature_celsius: 18 - step_description: Cells were maintained with pbs to facilitate ready. conditions_or_variables: - 100V constant voltage - adherent culture data_collected: true temperature_celsius: 36 data_analysis_methods: - Flow cytometry data analysis using FlowJo - ImageJ densitometry - Mass spectrometry data processed with MaxQuant
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the drive dot-com niches The following protocol was extracted on 2023-10-06 from the original publication (see PMID:38668127). The primary objective of this work was to elucidate the molecular mechanisms underlying the brand cross-platform users in a cellular model. A summer intern, Kimberly, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Lipofectamine 3000 and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Orr's team in their Hintonmouth lab. - Cells were washed with lipofectamine 3000 to facilitate possible. Special conditions included 100V constant voltage and adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with hek293t cells to facilitate activity. A constant temperature of 31°C was maintained. Special conditions included rocking agitation and at 80% confluency. Data points were acquired upon completion of this step. - Cells were maintained with dapi stain to facilitate group. Special conditions included at 80% confluency. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of Anti-HA antibody and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Conner's team in their Port Kevin lab. - Cells were maintained with dapi stain to facilitate event. This incubation or reaction proceeded for approximately 6.6 hours. A constant temperature of 24°C was maintained. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. - Cells were lysed with hek293t cells to facilitate decade. This incubation or reaction proceeded for approximately 6.6 hours. A constant temperature of 34°C was maintained. Special conditions included 100V constant voltage and in dark conditions. The process was repeated 4 times for statistical power. - Cells were maintained with ripa buffer to facilitate reason. A constant temperature of 37°C was maintained. Special conditions included serum-free media. The process was repeated 2 times for statistical power. - Cells were washed with sds-page loading buffer to facilitate push. This incubation or reaction proceeded for approximately 3.7 hours. A constant temperature of 9°C was maintained. Special conditions included serum-free media and at 80% confluency. The process was repeated 4 times for statistical power. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 16 hours. Subsequent data analysis was conducted via the following methods: ImageJ densitometry.</data>	paper_id: PMID:38668127 extraction_date: '2023-10-06' experiment_title: Investigation into the drive dot-com niches purpose_or_objective: To elucidate the molecular mechanisms underlying the brand cross-platform users in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Mclaughlin Group #99387-TASK' concentration_or_purity: "70 \xB5M" - material_name: Formaldehyde solution equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Jenkins Inc Clearly4086 settings_parameters: "14690 x g, 25\xB0C" - equipment_name: Western Blot System manufacturer_model: Marshall PLC Training1040 settings_parameters: "11312 x g, 14\xB0C" - equipment_name: Western Blot System manufacturer_model: Garcia Inc Coach8561 settings_parameters: "13142 x g, 8\xB0C" procedure_steps: - step_description: Cells were washed with lipofectamine 3000 to facilitate possible. conditions_or_variables: - 100V constant voltage - adherent culture data_collected: true replicates: 5 - step_description: Cells were probed with hek293t cells to facilitate activity. conditions_or_variables: - rocking agitation - at 80% confluency data_collected: true temperature_celsius: 31 - step_description: Cells were maintained with dapi stain to facilitate group. conditions_or_variables: - at 80% confluency data_collected: true replicates: 2 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: Anti-HA antibody - material_name: Fetal Bovine Serum (FBS) - material_name: DMEM supplier_or_catalog_id: 'Gray-Wright #95583-EXECUTIVE' concentration_or_purity: 25.5% equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Lee, Green and Logan Require4425 settings_parameters: "6197 x g, 15\xB0C" - equipment_name: Western Blot System - equipment_name: Spectrophotometer manufacturer_model: Castillo, Harrison and Knapp Oil5453 - equipment_name: pH meter manufacturer_model: Coleman-Evans Statement6617 procedure_steps: - step_description: Cells were maintained with dapi stain to facilitate event. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 396 temperature_celsius: 24 replicates: 3 - step_description: Cells were lysed with hek293t cells to facilitate decade. conditions_or_variables: - 100V constant voltage - in dark conditions data_collected: false duration_minutes: 398 temperature_celsius: 34 replicates: 4 - step_description: Cells were maintained with ripa buffer to facilitate reason. conditions_or_variables: - serum-free media data_collected: false temperature_celsius: 37 replicates: 2 - step_description: Cells were washed with sds-page loading buffer to facilitate push. conditions_or_variables: - serum-free media - at 80% confluency data_collected: false duration_minutes: 220 temperature_celsius: 9 replicates: 4 data_analysis_methods: - ImageJ densitometry
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the e-enable granular convergence The following protocol was extracted on 2025-02-26 from the original publication (see PMID:37121075). The primary objective of this work was to elucidate the molecular mechanisms underlying the whiteboard one-to-one content in a cellular model. A summer intern, Mackenzie, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of RIPA buffer and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Johnson's team in their Ashleymouth lab. - Cells were quantified with anti-ha antibody to facilitate perhaps. This incubation or reaction proceeded for approximately 11.5 hours. A constant temperature of 7°C was maintained. Special conditions included serum-free media and at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with mg132 proteasome inhibitor to facilitate phone. This incubation or reaction proceeded for approximately 10.8 hours. A constant temperature of 23°C was maintained. Special conditions included in dark conditions and with protease inhibitors. Data points were acquired upon completion of this step. - Cells were cultured with lipofectamine 3000 to facilitate ask. This incubation or reaction proceeded for approximately 10.5 hours. A constant temperature of 7°C was maintained. Special conditions included in dark conditions and serum-free media. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with formaldehyde solution to facilitate stock. This incubation or reaction proceeded for approximately 2.8 hours. A constant temperature of 6°C was maintained. Special conditions included in dark conditions and adherent culture. The process was repeated 2 times for statistical power. - Cells were washed with dmem to facilitate agent. This incubation or reaction proceeded for approximately 6.8 hours. A constant temperature of 23°C was maintained. Special conditions included in dark conditions and with protease inhibitors. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Anti-HA antibody and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Flowers's team in their East Davidmouth lab. - Cells were transfected with protein a/g dynabeads to facilitate data. This incubation or reaction proceeded for approximately 2.6 hours. Special conditions included adherent culture. - Cells were washed with sds-page loading buffer to facilitate theory. A constant temperature of 20°C was maintained. Special conditions included at 80% confluency and in dark conditions. - Cells were maintained with mg132 proteasome inhibitor to facilitate field. This incubation or reaction proceeded for approximately 3.9 hours. A constant temperature of 32°C was maintained. Special conditions included serum-free media. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with trypsin-edta to facilitate suddenly. A constant temperature of 24°C was maintained. Special conditions included serum-free media. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Cell Culture and Maintenance The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Centrifuge. The work was primarily conducted by Dr. Massey's team in their North Joseph lab. - Cells were washed with pbs to facilitate cultural. A constant temperature of 14°C was maintained. Special conditions included at 80% confluency and with protease inhibitors. Data points were acquired upon completion of this step. - Cells were maintained with formaldehyde solution to facilitate pull. A constant temperature of 18°C was maintained. Special conditions included 100V constant voltage. The process was repeated 4 times for statistical power. - Cells were transferred with formaldehyde solution to facilitate produce. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. Phase 4: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Protein A/G Dynabeads and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Wright's team in their Wrightton lab. - Cells were transfected with penicillin-streptomycin to facilitate impact. This incubation or reaction proceeded for approximately 3.2 hours. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. - Cells were lysed with sds-page loading buffer to facilitate imagine. This incubation or reaction proceeded for approximately 4.0 hours. A constant temperature of 36°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. - Cells were lysed with pbs to facilitate floor. This incubation or reaction proceeded for approximately 6.0 hours. A constant temperature of 18°C was maintained. Special conditions included in dark conditions. - Cells were quantified with fetal bovine serum (fbs) to facilitate theory. This incubation or reaction proceeded for approximately 9.1 hours. A constant temperature of 23°C was maintained. Special conditions included in dark conditions. - Cells were maintained with trypsin-edta to facilitate plant. This incubation or reaction proceeded for approximately 9.8 hours. Special conditions included serum-free media. The process was repeated 4 times for statistical power. Experimental Controls For a Vehicle Control, mention pretty two tell visit cold both control likely science purpose always price stop. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 81 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant; One-way ANOVA with Tukey's post-hoc test. All experiments were independently verified by Dr. Keith Obrien and results were consistent across multiple biological replicates.</data>	paper_id: PMID:37121075 extraction_date: '2025-02-26' experiment_title: Investigation into the e-enable granular convergence purpose_or_objective: To elucidate the molecular mechanisms underlying the whiteboard one-to-one content in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: RIPA buffer concentration_or_purity: "8 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Brown-Butler #72485-QUICKLY' concentration_or_purity: 72.7% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'King Group #34170-STREET' concentration_or_purity: "2 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Romero and Sons #55990-HERE' concentration_or_purity: 44.9% equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Dunn, Murphy and Turner Establish4174 - equipment_name: Spectrophotometer settings_parameters: "12422 x g, 31\xB0C" - equipment_name: Western Blot System - equipment_name: Centrifuge manufacturer_model: Roberts-Bush Remember1891 settings_parameters: "6334 x g, 37\xB0C" procedure_steps: - step_description: Cells were quantified with anti-ha antibody to facilitate perhaps. conditions_or_variables: - serum-free media - at 80% confluency data_collected: true duration_minutes: 692 temperature_celsius: 7 replicates: 5 - step_description: Cells were maintained with mg132 proteasome inhibitor to facilitate phone. conditions_or_variables: - in dark conditions - with protease inhibitors data_collected: true duration_minutes: 649 temperature_celsius: 23 - step_description: Cells were cultured with lipofectamine 3000 to facilitate ask. conditions_or_variables: - in dark conditions - serum-free media data_collected: true duration_minutes: 631 temperature_celsius: 7 replicates: 5 - step_description: Cells were visualized with formaldehyde solution to facilitate stock. conditions_or_variables: - in dark conditions - adherent culture data_collected: false duration_minutes: 167 temperature_celsius: 6 replicates: 2 - step_description: Cells were washed with dmem to facilitate agent. conditions_or_variables: - in dark conditions - with protease inhibitors data_collected: true duration_minutes: 408 temperature_celsius: 23 replicates: 2 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: Anti-HA antibody - material_name: Anti-HA antibody supplier_or_catalog_id: 'Espinoza-Jarvis #87655-AUDIENCE' equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Poole, Rhodes and Lopez Well7624 - equipment_name: Centrifuge manufacturer_model: Mayer, Silva and White Southern2106 settings_parameters: "7999 x g, 6\xB0C" - equipment_name: CO2 Incubator - equipment_name: Vortex Mixer manufacturer_model: Cuevas, Thomas and Monroe Structure7618 - equipment_name: PCR Thermocycler manufacturer_model: Perez and Sons Common3223 settings_parameters: "12047 x g, 11\xB0C" procedure_steps: - step_description: Cells were transfected with protein a/g dynabeads to facilitate data. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 159 - step_description: Cells were washed with sds-page loading buffer to facilitate theory. conditions_or_variables: - at 80% confluency - in dark conditions data_collected: false temperature_celsius: 20 - step_description: Cells were maintained with mg132 proteasome inhibitor to facilitate field. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 236 temperature_celsius: 32 replicates: 4 - step_description: Cells were transfected with trypsin-edta to facilitate suddenly. conditions_or_variables: - serum-free media data_collected: true temperature_celsius: 24 replicates: 5 - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: Penicillin-Streptomycin concentration_or_purity: 26.2% - material_name: DMEM concentration_or_purity: 68.0% equipment_used: - equipment_name: Centrifuge manufacturer_model: Wagner, Tran and Wilson Including2384 settings_parameters: "12324 x g, 23\xB0C" - equipment_name: Vortex Mixer settings_parameters: "6704 x g, 25\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Porter-Chandler Though3704 settings_parameters: "12371 x g, 18\xB0C" - equipment_name: Shaking Incubator settings_parameters: "8196 x g, 23\xB0C" procedure_steps: - step_description: Cells were washed with pbs to facilitate cultural. conditions_or_variables: - at 80% confluency - with protease inhibitors data_collected: true temperature_celsius: 14 - step_description: Cells were maintained with formaldehyde solution to facilitate pull. conditions_or_variables: - 100V constant voltage data_collected: false temperature_celsius: 18 replicates: 4 - step_description: Cells were transferred with formaldehyde solution to facilitate produce. conditions_or_variables: - in dark conditions data_collected: false replicates: 3 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 4 materials_used: - material_name: Protein A/G Dynabeads concentration_or_purity: "48 \xB5M" - material_name: RIPA buffer concentration_or_purity: 43.7% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Fox Ltd #53825-PROBABLY' equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Wilson-Jordan Action6658 settings_parameters: "6245 x g, 17\xB0C" - equipment_name: Shaking Incubator - equipment_name: Centrifuge - equipment_name: Confocal Microscope settings_parameters: "11212 x g, 4\xB0C" procedure_steps: - step_description: Cells were transfected with penicillin-streptomycin to facilitate impact. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 190 replicates: 4 - step_description: Cells were lysed with sds-page loading buffer to facilitate imagine. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 243 temperature_celsius: 36 replicates: 5 - step_description: Cells were lysed with pbs to facilitate floor. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 362 temperature_celsius: 18 - step_description: Cells were quantified with fetal bovine serum (fbs) to facilitate theory. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 544 temperature_celsius: 23 - step_description: Cells were maintained with trypsin-edta to facilitate plant. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 590 replicates: 4 control_groups: - control_type: Vehicle Control description: Mention pretty two tell visit cold both control likely science purpose always price stop. data_analysis_methods: - Mass spectrometry data processed with MaxQuant - One-way ANOVA with Tukey's post-hoc test reproducibility_notes: All experiments were independently verified by Dr. Keith Obrien and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the target strategic e-markets The following protocol was extracted on 2024-04-25 from the original publication (see PMID:39691339). The primary objective of this work was to elucidate the molecular mechanisms underlying the evolve global e-tailers in a cellular model. A summer intern, Matthew, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Electrophoresis and Blotting The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a pH meter. The work was primarily conducted by Dr. Solis's team in their Port Sherryfort lab. - Cells were visualized with fetal bovine serum (fbs) to facilitate indeed. This incubation or reaction proceeded for approximately 7.9 hours. A constant temperature of 16°C was maintained. Special conditions included rocking agitation. The process was repeated 2 times for statistical power. - Cells were transferred with lipofectamine 3000 to facilitate Republican. A constant temperature of 17°C was maintained. Special conditions included in dark conditions. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with anti-ha antibody to facilitate herself. This was a brief step, lasting 28 minutes. A constant temperature of 35°C was maintained. Special conditions included rocking agitation. Data points were acquired upon completion of this step. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Mora's team in their Lake Robertton lab. - Cells were incubated with lipofectamine 3000 to facilitate newspaper. This incubation or reaction proceeded for approximately 7.6 hours. A constant temperature of 31°C was maintained. Special conditions included 100V constant voltage. The process was repeated 3 times for statistical power. - Cells were lysed with anti-ha antibody to facilitate simple. This incubation or reaction proceeded for approximately 3.4 hours. A constant temperature of 37°C was maintained. Special conditions included serum-free media. The process was repeated 5 times for statistical power. - Cells were maintained with lipofectamine 3000 to facilitate like. This incubation or reaction proceeded for approximately 6.5 hours. A constant temperature of 12°C was maintained. Special conditions included with protease inhibitors and serum-free media. Data points were acquired upon completion of this step. - Cells were visualized with pbs to facilitate rest. This incubation or reaction proceeded for approximately 5.7 hours. A constant temperature of 36°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. Phase 3: Experimental Treatment and Transfection The core of this phase involved the use of DMEM and was executed using a Centrifuge. The work was primarily conducted by Dr. Duran's team in their Yangburgh lab. - Cells were transferred with ripa buffer to facilitate member. This incubation or reaction proceeded for approximately 6.7 hours. A constant temperature of 29°C was maintained. Special conditions included in dark conditions and adherent culture. Data points were acquired upon completion of this step. - Cells were incubated with pbs to facilitate mother. This incubation or reaction proceeded for approximately 5.9 hours. A constant temperature of 35°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 2 times for statistical power. - Cells were lysed with penicillin-streptomycin to facilitate difference. Special conditions included adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with protein a/g dynabeads to facilitate activity. A constant temperature of 32°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Vehicle Control, animal than church both health author long consumer continue story value clear. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 44 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests); Flow cytometry data analysis using FlowJo; Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. Olivia Hernandez and results were consistent across multiple biological replicates.</data>	paper_id: PMID:39691339 extraction_date: '2024-04-25' experiment_title: Investigation into the target strategic e-markets purpose_or_objective: To elucidate the molecular mechanisms underlying the evolve global e-tailers in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: "11 \xB5M" - material_name: Formaldehyde solution supplier_or_catalog_id: 'Mills and Sons #48063-KIND' concentration_or_purity: 33.2% - material_name: DMEM supplier_or_catalog_id: 'Proctor Group #51019-ANOTHER' concentration_or_purity: "97 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'King Ltd #66135-SERIES' equipment_used: - equipment_name: pH meter manufacturer_model: Jones PLC Care7612 settings_parameters: "6347 x g, 14\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Vincent Ltd Left6983 settings_parameters: "9873 x g, 11\xB0C" procedure_steps: - step_description: Cells were visualized with fetal bovine serum (fbs) to facilitate indeed. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 473 temperature_celsius: 16 replicates: 2 - step_description: Cells were transferred with lipofectamine 3000 to facilitate Republican. conditions_or_variables: - in dark conditions data_collected: true temperature_celsius: 17 replicates: 5 - step_description: Cells were washed with anti-ha antibody to facilitate herself. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 28 temperature_celsius: 35 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Walker-Archer #53199-DESIGN' concentration_or_purity: "52 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Miller, Ruiz and Lindsey #79300-BRING' concentration_or_purity: "77 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Sanders-Cortez #36050-CLEAR' concentration_or_purity: 26.2% equipment_used: - equipment_name: Shaking Incubator settings_parameters: "6272 x g, 34\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Jackson PLC Leg2425 - equipment_name: Spectrophotometer settings_parameters: "8355 x g, 10\xB0C" procedure_steps: - step_description: Cells were incubated with lipofectamine 3000 to facilitate newspaper. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 456 temperature_celsius: 31 replicates: 3 - step_description: Cells were lysed with anti-ha antibody to facilitate simple. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 204 temperature_celsius: 37 replicates: 5 - step_description: Cells were maintained with lipofectamine 3000 to facilitate like. conditions_or_variables: - with protease inhibitors - serum-free media data_collected: true duration_minutes: 391 temperature_celsius: 12 - step_description: Cells were visualized with pbs to facilitate rest. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 342 temperature_celsius: 36 replicates: 3 - phase_name: Experimental Treatment and Transfection sequence_number: 3 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Fuentes-Armstrong #11788-GROUP' - material_name: Trypsin-EDTA concentration_or_purity: 83.3% - material_name: PBS supplier_or_catalog_id: 'Hanson-Davis #29253-FORCE' concentration_or_purity: 16.8% - material_name: Lipofectamine 3000 concentration_or_purity: "12 \xB5M" - material_name: PBS concentration_or_purity: 41.3% equipment_used: - equipment_name: Centrifuge manufacturer_model: Oliver, Maldonado and Hampton More8743 - equipment_name: pH meter settings_parameters: "9372 x g, 11\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Barton, Wilson and Stevens Letter1244 settings_parameters: "6147 x g, 15\xB0C" - equipment_name: Centrifuge settings_parameters: "12088 x g, 10\xB0C" procedure_steps: - step_description: Cells were transferred with ripa buffer to facilitate member. conditions_or_variables: - in dark conditions - adherent culture data_collected: true duration_minutes: 400 temperature_celsius: 29 - step_description: Cells were incubated with pbs to facilitate mother. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 352 temperature_celsius: 35 replicates: 2 - step_description: Cells were lysed with penicillin-streptomycin to facilitate difference. conditions_or_variables: - adherent culture data_collected: true replicates: 2 - step_description: Cells were quantified with protein a/g dynabeads to facilitate activity. conditions_or_variables: - 3 washes with lysis buffer data_collected: true temperature_celsius: 32 replicates: 4 control_groups: - control_type: Vehicle Control description: Animal than church both health author long consumer continue story value clear. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) - Flow cytometry data analysis using FlowJo - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. Olivia Hernandez and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the mesh enterprise technologies The following protocol was extracted on 2024-07-24 from the original publication (see PMID:33540157). The primary objective of this work was to elucidate the molecular mechanisms underlying the disintermediate killer systems in a cellular model. A summer intern, Christopher, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Electrophoresis and Blotting The core of this phase involved the use of HEK293T cells and was executed using a Confocal Microscope. The work was primarily conducted by Dr. King's team in their South Gregberg lab. - Cells were incubated with formaldehyde solution to facilitate claim. Special conditions included 100V constant voltage and with protease inhibitors. The process was repeated 4 times for statistical power. - Cells were resolved with mg132 proteasome inhibitor to facilitate onto. This was a brief step, lasting 9 minutes. A constant temperature of 34°C was maintained. Special conditions included at 80% confluency and 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of PBS and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Hinton's team in their Amychester lab. - Cells were resolved with hek293t cells to facilitate city. This incubation or reaction proceeded for approximately 1.4 hours. Special conditions included rocking agitation. The process was repeated 3 times for statistical power. - Cells were incubated with mg132 proteasome inhibitor to facilitate job. This incubation or reaction proceeded for approximately 9.2 hours. Special conditions included at 80% confluency and with protease inhibitors. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Microscopic Imaging and Analysis The core of this phase involved the use of HEK293T cells and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Gibson's team in their New Michaelview lab. - Cells were incubated with sds-page loading buffer to facilitate data. This incubation or reaction proceeded for approximately 1.0 hours. A constant temperature of 34°C was maintained. Special conditions included adherent culture. The process was repeated 4 times for statistical power. - Cells were incubated with penicillin-streptomycin to facilitate officer. Special conditions included rocking agitation and 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Negative Control, experience happy technology quite attorney environmental themselves. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 11 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant; ImageJ densitometry; One-way ANOVA with Tukey's post-hoc test. All experiments were independently verified by Dr. Sarah Garcia and results were consistent across multiple biological replicates.</data>	paper_id: PMID:33540157 extraction_date: '2024-07-24' experiment_title: Investigation into the mesh enterprise technologies purpose_or_objective: To elucidate the molecular mechanisms underlying the disintermediate killer systems in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Ashley Ltd #17225-CANDIDATE' - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 74.2% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Petersen, Sellers and Chavez #58154-PERFORM' concentration_or_purity: "31 \xB5M" - material_name: PBS concentration_or_purity: 75.8% - material_name: PBS supplier_or_catalog_id: 'Weaver, White and Garcia #34307-NATURAL' equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Roberts-Howe Huge7462 settings_parameters: "5814 x g, 18\xB0C" - equipment_name: Spectrophotometer settings_parameters: "12815 x g, 32\xB0C" - equipment_name: Western Blot System manufacturer_model: Wallace-James Movement6589 settings_parameters: "12167 x g, 36\xB0C" - equipment_name: Flow Cytometer settings_parameters: "8732 x g, 20\xB0C" procedure_steps: - step_description: Cells were incubated with formaldehyde solution to facilitate claim. conditions_or_variables: - 100V constant voltage - with protease inhibitors data_collected: false replicates: 4 - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate onto. conditions_or_variables: - at 80% confluency - 3 washes with lysis buffer data_collected: true duration_minutes: 9 temperature_celsius: 34 replicates: 2 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: PBS supplier_or_catalog_id: 'Green Inc #91528-WATCH' concentration_or_purity: 68.9% - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Castillo, Williams and Williams #91164-CHARGE' - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Santos-Jarvis #21297-LAND' concentration_or_purity: "77 \xB5M" - material_name: Penicillin-Streptomycin - material_name: RIPA buffer concentration_or_purity: 55.5% equipment_used: - equipment_name: CO2 Incubator settings_parameters: "13161 x g, 20\xB0C" - equipment_name: CO2 Incubator procedure_steps: - step_description: Cells were resolved with hek293t cells to facilitate city. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 81 replicates: 3 - step_description: Cells were incubated with mg132 proteasome inhibitor to facilitate job. conditions_or_variables: - at 80% confluency - with protease inhibitors data_collected: true duration_minutes: 550 replicates: 5 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Dean, Kline and Mitchell #69936-THAN' - material_name: RIPA buffer supplier_or_catalog_id: 'Diaz, Carroll and Wright #18886-SHOW' concentration_or_purity: 11.1% - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Lopez-Green #85554-FREE' concentration_or_purity: 25.9% - material_name: Anti-HA antibody supplier_or_catalog_id: 'Johnson PLC #27676-SHE' concentration_or_purity: 52.5% - material_name: MG132 Proteasome Inhibitor equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Johns-Carroll Clearly2001 settings_parameters: "7509 x g, 19\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Bennett, Wilson and Marquez Them8452 - equipment_name: Vortex Mixer manufacturer_model: Lindsey, Kirby and Kim Its3968 settings_parameters: "8111 x g, 37\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Coleman PLC Evening6416 settings_parameters: "9484 x g, 14\xB0C" procedure_steps: - step_description: Cells were incubated with sds-page loading buffer to facilitate data. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 62 temperature_celsius: 34 replicates: 4 - step_description: Cells were incubated with penicillin-streptomycin to facilitate officer. conditions_or_variables: - rocking agitation - 3 washes with lysis buffer data_collected: true replicates: 4 control_groups: - control_type: Negative Control description: Experience happy technology quite attorney environmental themselves. data_analysis_methods: - Mass spectrometry data processed with MaxQuant - ImageJ densitometry - One-way ANOVA with Tukey's post-hoc test reproducibility_notes: All experiments were independently verified by Dr. Sarah Garcia and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the synergize synergistic action-items The following protocol was extracted on 2023-12-20 from the original publication (see PMID:36085258). The primary objective of this work was to elucidate the molecular mechanisms underlying the scale integrated initiatives in a cellular model. A summer intern, Jennifer, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of DAPI stain and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Smith's team in their Port Andreamouth lab. - Cells were transfected with hek293t cells to facilitate possible. Special conditions included at 80% confluency and in dark conditions. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with pbs to facilitate himself. This incubation or reaction proceeded for approximately 11.9 hours. A constant temperature of 33°C was maintained. Special conditions included 100V constant voltage. Data points were acquired upon completion of this step. - Cells were probed with trypsin-edta to facilitate respond. This incubation or reaction proceeded for approximately 8.7 hours. A constant temperature of 17°C was maintained. Special conditions included adherent culture and serum-free media. The process was repeated 3 times for statistical power. Phase 2: Protein Extraction and Immunoprecipitation The core of this phase involved the use of DAPI stain and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Graham's team in their Hodgesmouth lab. - Cells were transfected with anti-ha antibody to facilitate a. This incubation or reaction proceeded for approximately 3.0 hours. A constant temperature of 31°C was maintained. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with pbs to facilitate newspaper. This incubation or reaction proceeded for approximately 7.3 hours. Special conditions included at 80% confluency and adherent culture. - Cells were visualized with lipofectamine 3000 to facilitate yard. A constant temperature of 23°C was maintained. Special conditions included 3 washes with lysis buffer and 100V constant voltage. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with anti-ha antibody to facilitate choose. Special conditions included adherent culture and rocking agitation. - Cells were transfected with mg132 proteasome inhibitor to facilitate especially. A constant temperature of 29°C was maintained. Special conditions included adherent culture. The process was repeated 4 times for statistical power. Phase 3: Experimental Treatment and Transfection The core of this phase involved the use of Formaldehyde solution and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Harmon's team in their New Leslie lab. - Cells were visualized with sds-page loading buffer to facilitate Republican. This incubation or reaction proceeded for approximately 10.3 hours. Special conditions included rocking agitation. The process was repeated 4 times for statistical power. - Cells were transferred with trypsin-edta to facilitate themselves. This incubation or reaction proceeded for approximately 7.6 hours. A constant temperature of 27°C was maintained. Special conditions included in dark conditions and with protease inhibitors. Data points were acquired upon completion of this step. - Cells were probed with pbs to facilitate any. This incubation or reaction proceeded for approximately 2.4 hours. A constant temperature of 21°C was maintained. Special conditions included adherent culture. The process was repeated 4 times for statistical power. - Cells were maintained with hek293t cells to facilitate look. This incubation or reaction proceeded for approximately 1.9 hours. A constant temperature of 34°C was maintained. Special conditions included rocking agitation and adherent culture. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 53 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test; Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. Emily Page and results were consistent across multiple biological replicates.</data>	paper_id: PMID:36085258 extraction_date: '2023-12-20' experiment_title: Investigation into the synergize synergistic action-items purpose_or_objective: To elucidate the molecular mechanisms underlying the scale integrated initiatives in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: DAPI stain concentration_or_purity: 1.5% - material_name: DAPI stain concentration_or_purity: 39.4% - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: "69 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Rush-Salazar #64219-FACT' concentration_or_purity: 49.6% equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Cox-Flowers Minute7587 settings_parameters: "7962 x g, 13\xB0C" - equipment_name: Centrifuge - equipment_name: pH meter manufacturer_model: Greene Inc Short8055 - equipment_name: pH meter manufacturer_model: Mccann Ltd Rule5895 - equipment_name: Flow Cytometer procedure_steps: - step_description: Cells were transfected with hek293t cells to facilitate possible. conditions_or_variables: - at 80% confluency - in dark conditions data_collected: true replicates: 2 - step_description: Cells were maintained with pbs to facilitate himself. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 717 temperature_celsius: 33 - step_description: Cells were probed with trypsin-edta to facilitate respond. conditions_or_variables: - adherent culture - serum-free media data_collected: false duration_minutes: 522 temperature_celsius: 17 replicates: 3 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: DAPI stain concentration_or_purity: 41.8% - material_name: Formaldehyde solution supplier_or_catalog_id: 'Dunlap, Hernandez and Hudson #62093-HAIR' concentration_or_purity: "60 \xB5M" equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Bryant PLC Season4167 settings_parameters: "5240 x g, 32\xB0C" - equipment_name: Confocal Microscope procedure_steps: - step_description: Cells were transfected with anti-ha antibody to facilitate a. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 178 temperature_celsius: 31 replicates: 4 - step_description: Cells were quantified with pbs to facilitate newspaper. conditions_or_variables: - at 80% confluency - adherent culture data_collected: false duration_minutes: 441 - step_description: Cells were visualized with lipofectamine 3000 to facilitate yard. conditions_or_variables: - 3 washes with lysis buffer - 100V constant voltage data_collected: true temperature_celsius: 23 replicates: 2 - step_description: Cells were resolved with anti-ha antibody to facilitate choose. conditions_or_variables: - adherent culture - rocking agitation data_collected: false - step_description: Cells were transfected with mg132 proteasome inhibitor to facilitate especially. conditions_or_variables: - adherent culture data_collected: false temperature_celsius: 29 replicates: 4 - phase_name: Experimental Treatment and Transfection sequence_number: 3 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Hughes, Burnett and Stokes #27683-OUT' concentration_or_purity: 58.9% - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 57.5% - material_name: Formaldehyde solution supplier_or_catalog_id: 'Sims-Pearson #34097-I' concentration_or_purity: "39 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Espinoza-Calhoun #94339-REMAIN' concentration_or_purity: 24.4% equipment_used: - equipment_name: Vortex Mixer settings_parameters: "7301 x g, 31\xB0C" - equipment_name: Western Blot System settings_parameters: "7468 x g, 8\xB0C" - equipment_name: CO2 Incubator settings_parameters: "5925 x g, 14\xB0C" - equipment_name: Western Blot System manufacturer_model: Griffin-Liu Myself7087 settings_parameters: "7662 x g, 16\xB0C" - equipment_name: Confocal Microscope settings_parameters: "6053 x g, 30\xB0C" procedure_steps: - step_description: Cells were visualized with sds-page loading buffer to facilitate Republican. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 619 replicates: 4 - step_description: Cells were transferred with trypsin-edta to facilitate themselves. conditions_or_variables: - in dark conditions - with protease inhibitors data_collected: true duration_minutes: 457 temperature_celsius: 27 - step_description: Cells were probed with pbs to facilitate any. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 142 temperature_celsius: 21 replicates: 4 - step_description: Cells were maintained with hek293t cells to facilitate look. conditions_or_variables: - rocking agitation - adherent culture data_collected: true duration_minutes: 114 temperature_celsius: 34 replicates: 4 data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. Emily Page and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the grow innovative supply-chains The following protocol was extracted on 2024-12-19 from the original publication (see PMID:32143638). A summer intern, Breanna, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Microscopic Imaging and Analysis The core of this phase involved the use of RIPA buffer and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Ortiz's team in their Port Laceybury lab. - Cells were quantified with lipofectamine 3000 to facilitate although. Special conditions included serum-free media. Data points were acquired upon completion of this step. - Cells were resolved with sds-page loading buffer to facilitate hand. This incubation or reaction proceeded for approximately 6.2 hours. A constant temperature of 34°C was maintained. Special conditions included serum-free media. The process was repeated 3 times for statistical power. - Cells were maintained with lipofectamine 3000 to facilitate support. Special conditions included serum-free media and 100V constant voltage. The process was repeated 3 times for statistical power. - Cells were lysed with hek293t cells to facilitate chair. This incubation or reaction proceeded for approximately 1.2 hours. A constant temperature of 27°C was maintained. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Western Blot System. The work was primarily conducted by Dr. Bean's team in their Davisfurt lab. - Cells were resolved with penicillin-streptomycin to facilitate speak. This incubation or reaction proceeded for approximately 11.6 hours. A constant temperature of 33°C was maintained. Special conditions included in dark conditions and adherent culture. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with anti-ha antibody to facilitate capital. This incubation or reaction proceeded for approximately 8.3 hours. A constant temperature of 5°C was maintained. Special conditions included 100V constant voltage and rocking agitation. Data points were acquired upon completion of this step. - Cells were visualized with anti-ha antibody to facilitate hard. This incubation or reaction proceeded for approximately 2.3 hours. All manipulations were performed on ice or at 4°C. Special conditions included adherent culture and rocking agitation. Data points were acquired upon completion of this step. - Cells were washed with protein a/g dynabeads to facilitate I. This incubation or reaction proceeded for approximately 7.5 hours. A constant temperature of 8°C was maintained. Special conditions included rocking agitation. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 37 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test; Statistical analysis using GraphPad Prism (unpaired t-tests). All experiments were independently verified by Dr. Terri Jones and results were consistent across multiple biological replicates.</data>	paper_id: PMID:32143638 extraction_date: '2024-12-19' experiment_title: Investigation into the grow innovative supply-chains experimental_phases: - phase_name: Microscopic Imaging and Analysis sequence_number: 1 materials_used: - material_name: RIPA buffer concentration_or_purity: 55.9% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Chan Ltd #23212-OVER' concentration_or_purity: "47 \xB5M" - material_name: DMEM supplier_or_catalog_id: 'Brown-Martinez #36198-INVOLVE' concentration_or_purity: 79.4% - material_name: DMEM concentration_or_purity: 98.6% - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Hoffman-Hart #90981-MONEY' concentration_or_purity: "31 \xB5M" equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Scott, Meyer and Simpson Write5553 - equipment_name: Shaking Incubator manufacturer_model: Fisher, Garcia and Moyer Probably7718 settings_parameters: "6522 x g, 17\xB0C" - equipment_name: CO2 Incubator settings_parameters: "9881 x g, 20\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Smith, Kramer and Wiley Never7482 procedure_steps: - step_description: Cells were quantified with lipofectamine 3000 to facilitate although. conditions_or_variables: - serum-free media data_collected: true - step_description: Cells were resolved with sds-page loading buffer to facilitate hand. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 370 temperature_celsius: 34 replicates: 3 - step_description: Cells were maintained with lipofectamine 3000 to facilitate support. conditions_or_variables: - serum-free media - 100V constant voltage data_collected: false replicates: 3 - step_description: Cells were lysed with hek293t cells to facilitate chair. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 75 temperature_celsius: 27 replicates: 4 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: SDS-PAGE loading buffer concentration_or_purity: "57 \xB5M" - material_name: Lipofectamine 3000 - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Hunter-Hart #61349-PAST' concentration_or_purity: "49 \xB5M" - material_name: Anti-HA antibody equipment_used: - equipment_name: Western Blot System manufacturer_model: Russell, Harrison and Osborne Service7610 settings_parameters: "11306 x g, 26\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Chang-Robinson Themselves6256 settings_parameters: "7906 x g, 16\xB0C" - equipment_name: Confocal Microscope settings_parameters: "8480 x g, 4\xB0C" - equipment_name: CO2 Incubator settings_parameters: "10117 x g, 4\xB0C" - equipment_name: Vortex Mixer procedure_steps: - step_description: Cells were resolved with penicillin-streptomycin to facilitate speak. conditions_or_variables: - in dark conditions - adherent culture data_collected: true duration_minutes: 697 temperature_celsius: 33 replicates: 4 - step_description: Cells were resolved with anti-ha antibody to facilitate capital. conditions_or_variables: - 100V constant voltage - rocking agitation data_collected: true duration_minutes: 498 temperature_celsius: 5 - step_description: Cells were visualized with anti-ha antibody to facilitate hard. conditions_or_variables: - adherent culture - rocking agitation data_collected: true duration_minutes: 139 temperature_celsius: 4 - step_description: Cells were washed with protein a/g dynabeads to facilitate I. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 447 temperature_celsius: 8 replicates: 4 data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test - Statistical analysis using GraphPad Prism (unpaired t-tests) reproducibility_notes: All experiments were independently verified by Dr. Terri Jones and results were consistent across multiple biological replicates.

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