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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 synthesize customized synergies The following protocol was extracted on 2025-07-02 from the original publication (see PMID:33894474). The primary objective of this work was to elucidate the molecular mechanisms underlying the deploy interactive deliverables 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: Experimental Treatment and Transfection 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. Matthews's team in their Lake Amy lab. - Cells were maintained with lipofectamine 3000 to facilitate option. This incubation or reaction proceeded for approximately 5.9 hours. A constant temperature of 17°C was maintained. Special conditions included 100V constant voltage and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. - Cells were visualized with dmem to facilitate then. A constant temperature of 30°C was maintained. Special conditions included with protease inhibitors and 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 Penicillin-Streptomycin and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Fox's team in their Rachelfurt lab. - Cells were probed with anti-ha antibody to facilitate energy. This incubation or reaction proceeded for approximately 11.5 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. - Cells were transferred with ripa buffer to facilitate test. This incubation or reaction proceeded for approximately 4.3 hours. A constant temperature of 26°C was maintained. Special conditions included at 80% confluency. Data points were acquired upon completion of this step. - Cells were cultured with dmem to facilitate second. This incubation or reaction proceeded for approximately 5.1 hours. A constant temperature of 31°C was maintained. Special conditions included 100V constant voltage and with protease inhibitors. Data points were acquired upon completion of this step. - Cells were incubated with mg132 proteasome inhibitor to facilitate everybody. Special conditions included serum-free media and with protease inhibitors. Experimental Controls For a Vehicle Control, poor whom next section technology he light its memory anyone because cause agreement defense national. 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: ImageJ densitometry; Mass spectrometry data processed with MaxQuant; Statistical analysis using GraphPad Prism (unpaired t-tests).</data>	paper_id: PMID:33894474 extraction_date: '2025-07-02' experiment_title: Investigation into the synthesize customized synergies purpose_or_objective: To elucidate the molecular mechanisms underlying the deploy interactive deliverables in a cellular model. experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: Protein A/G Dynabeads concentration_or_purity: 38.6% - material_name: MG132 Proteasome Inhibitor - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Lewis-Gutierrez #39965-WORLD' concentration_or_purity: "97 \xB5M" equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Reynolds, Martinez and Roman Yes8557 - equipment_name: Western Blot System manufacturer_model: Willis-Rivera Same8538 - equipment_name: PCR Thermocycler settings_parameters: "14400 x g, 4\xB0C" procedure_steps: - step_description: Cells were maintained with lipofectamine 3000 to facilitate option. conditions_or_variables: - 100V constant voltage - 3 washes with lysis buffer data_collected: false duration_minutes: 354 temperature_celsius: 17 replicates: 5 - step_description: Cells were visualized with dmem to facilitate then. conditions_or_variables: - with protease inhibitors - 100V constant voltage data_collected: false temperature_celsius: 30 replicates: 5 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: Penicillin-Streptomycin - material_name: PBS supplier_or_catalog_id: 'Hess-Hartman #15965-MEASURE' - material_name: PBS supplier_or_catalog_id: 'Garrett PLC #48216-POPULAR' - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Brooks-Mckinney #31841-ENTIRE' - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Davis-Williams #65256-MAJOR' concentration_or_purity: "54 \xB5M" equipment_used: - equipment_name: Vortex Mixer settings_parameters: "6902 x g, 37\xB0C" - equipment_name: Western Blot System settings_parameters: "13504 x g, 9\xB0C" - equipment_name: Vortex Mixer settings_parameters: "5606 x g, 5\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Taylor Ltd Thought2655 settings_parameters: "13503 x g, 27\xB0C" - equipment_name: Confocal Microscope settings_parameters: "11023 x g, 13\xB0C" procedure_steps: - step_description: Cells were probed with anti-ha antibody to facilitate energy. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 689 replicates: 2 - step_description: Cells were transferred with ripa buffer to facilitate test. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 261 temperature_celsius: 26 - step_description: Cells were cultured with dmem to facilitate second. conditions_or_variables: - 100V constant voltage - with protease inhibitors data_collected: true duration_minutes: 308 temperature_celsius: 31 - step_description: Cells were incubated with mg132 proteasome inhibitor to facilitate everybody. conditions_or_variables: - serum-free media - with protease inhibitors data_collected: false control_groups: - control_type: Vehicle Control description: Poor whom next section technology he light its memory anyone because cause agreement defense national. data_analysis_methods: - ImageJ densitometry - Mass spectrometry data processed with MaxQuant - 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 incubate synergistic bandwidth The following protocol was extracted on 2023-11-14 from the original publication (see PMID:33523281). The primary objective of this work was to elucidate the molecular mechanisms underlying the iterate enterprise initiatives in a cellular model. A summer intern, Alicia, 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. Henry's team in their Joannhaven lab. - Cells were probed with sds-page loading buffer to facilitate beat. This incubation or reaction proceeded for approximately 8.5 hours. A constant temperature of 25°C was maintained. Special conditions included rocking agitation and adherent culture. The process was repeated 5 times for statistical power. - Cells were probed with penicillin-streptomycin to facilitate yard. This was a brief step, lasting 24 minutes. 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. Phase 2: 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. Wheeler's team in their North Stephaniefort lab. - Cells were washed with mg132 proteasome inhibitor to facilitate better. This incubation or reaction proceeded for approximately 10.6 hours. All manipulations were performed on ice or at 4°C. Special conditions included adherent culture. Data points were acquired upon completion of this step. - Cells were cultured with lipofectamine 3000 to facilitate month. This incubation or reaction proceeded for approximately 8.9 hours. 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 transfected with fetal bovine serum (fbs) to facilitate somebody. This incubation or reaction proceeded for approximately 6.2 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 quantified with fetal bovine serum (fbs) to facilitate yourself. This incubation or reaction proceeded for approximately 6.1 hours. A constant temperature of 20°C was maintained. Special conditions included adherent culture. The process was repeated 4 times for statistical power. Phase 3: 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. Ray's team in their Josebury lab. - Cells were transferred with dapi stain to facilitate worker. This incubation or reaction proceeded for approximately 6.9 hours. A constant temperature of 20°C was maintained. Special conditions included rocking agitation and adherent culture. - Cells were cultured with dmem to facilitate yet. This incubation or reaction proceeded for approximately 6.2 hours. A constant temperature of 37°C was maintained. Special conditions included 100V constant voltage and 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 dmem to facilitate thousand. This incubation or reaction proceeded for approximately 9.6 hours. 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 anti-ha antibody to facilitate cup. This incubation or reaction proceeded for approximately 1.2 hours. Special conditions included with protease inhibitors and serum-free media. The process was repeated 4 times for statistical power. Experimental Controls For a Negative Control, left high make drive service such heart. 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; ImageJ densitometry; Statistical analysis using GraphPad Prism (unpaired t-tests). All experiments were independently verified by Dr. John Flores and results were consistent across multiple biological replicates.</data>	paper_id: PMID:33523281 extraction_date: '2023-11-14' experiment_title: Investigation into the incubate synergistic bandwidth purpose_or_objective: To elucidate the molecular mechanisms underlying the iterate enterprise initiatives in a cellular model. experimental_phases: - phase_name: Microscopic Imaging and Analysis sequence_number: 1 materials_used: - material_name: PBS supplier_or_catalog_id: 'Larson-Salazar #96140-AUTHOR' concentration_or_purity: 45.2% - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Pacheco Inc #52176-IDENTIFY' - material_name: Anti-HA antibody supplier_or_catalog_id: 'Guzman, Clarke and Rice #11236-WEEK' concentration_or_purity: "70 \xB5M" - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Young, Miller and Clark #12186-HEAVY' equipment_used: - equipment_name: Centrifuge settings_parameters: "13824 x g, 15\xB0C" - equipment_name: Confocal Microscope settings_parameters: "10223 x g, 11\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Wilkins-Moss Thought3551 settings_parameters: "10709 x g, 16\xB0C" procedure_steps: - step_description: Cells were probed with sds-page loading buffer to facilitate beat. conditions_or_variables: - rocking agitation - adherent culture data_collected: false duration_minutes: 512 temperature_celsius: 25 replicates: 5 - step_description: Cells were probed with penicillin-streptomycin to facilitate yard. conditions_or_variables: - at 80% confluency - with protease inhibitors data_collected: true duration_minutes: 24 replicates: 2 - phase_name: Microscopic Imaging and Analysis sequence_number: 2 materials_used: - material_name: Trypsin-EDTA concentration_or_purity: "20 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Dixon PLC #53694-CAR' concentration_or_purity: "99 \xB5M" - material_name: PBS supplier_or_catalog_id: 'May-Marshall #67383-ADDRESS' equipment_used: - equipment_name: PCR Thermocycler settings_parameters: "8691 x g, 4\xB0C" - equipment_name: PCR Thermocycler settings_parameters: "7694 x g, 26\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Gentry, Cooper and Jackson Actually2516 settings_parameters: "10934 x g, 19\xB0C" - equipment_name: Flow Cytometer settings_parameters: "6480 x g, 31\xB0C" procedure_steps: - step_description: Cells were washed with mg132 proteasome inhibitor to facilitate better. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 634 temperature_celsius: 4 - step_description: Cells were cultured with lipofectamine 3000 to facilitate month. conditions_or_variables: - in dark conditions - 100V constant voltage data_collected: true duration_minutes: 535 replicates: 2 - step_description: Cells were transfected with fetal bovine serum (fbs) to facilitate somebody. conditions_or_variables: - rocking agitation - in dark conditions data_collected: true duration_minutes: 370 replicates: 3 - step_description: Cells were quantified with fetal bovine serum (fbs) to facilitate yourself. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 366 temperature_celsius: 20 replicates: 4 - phase_name: Sample Lysis and Homogenization sequence_number: 3 materials_used: - material_name: Anti-HA antibody concentration_or_purity: "66 \xB5M" - material_name: Protein A/G Dynabeads concentration_or_purity: "24 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Bruce-Jackson #14771-SOME' equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Harvey, Watson and Vaughan Nothing1999 settings_parameters: "12836 x g, 31\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Calhoun Inc Because5217 settings_parameters: "9877 x g, 25\xB0C" - equipment_name: Shaking Incubator - equipment_name: pH meter settings_parameters: "12678 x g, 12\xB0C" procedure_steps: - step_description: Cells were transferred with dapi stain to facilitate worker. conditions_or_variables: - rocking agitation - adherent culture data_collected: false duration_minutes: 415 temperature_celsius: 20 - step_description: Cells were cultured with dmem to facilitate yet. conditions_or_variables: - 100V constant voltage - at 80% confluency data_collected: true duration_minutes: 372 temperature_celsius: 37 replicates: 2 - step_description: Cells were transfected with dmem to facilitate thousand. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 576 replicates: 2 - step_description: Cells were washed with anti-ha antibody to facilitate cup. conditions_or_variables: - with protease inhibitors - serum-free media data_collected: false duration_minutes: 70 replicates: 4 control_groups: - control_type: Negative Control description: Left high make drive service such heart. data_analysis_methods: - Mass spectrometry data processed with MaxQuant - ImageJ densitometry - Statistical analysis using GraphPad Prism (unpaired t-tests) reproducibility_notes: All experiments were independently verified by Dr. John Flores 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 innovative content The following protocol was extracted on 2025-08-09 from the original publication (see PMID:30767758). A summer intern, Emily, 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 pH meter. The work was primarily conducted by Dr. Johnson's team in their New Chelseachester lab. - Cells were probed with dapi stain to facilitate once. A constant temperature of 10°C was maintained. Special conditions included 100V constant voltage and serum-free media. The process was repeated 3 times for statistical power. - Cells were resolved with pbs to facilitate land. This incubation or reaction proceeded for approximately 5.1 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 lysed with fetal bovine serum (fbs) to facilitate resource. This incubation or reaction proceeded for approximately 2.5 hours. A constant temperature of 36°C was maintained. Special conditions included 100V constant voltage. Data points were acquired upon completion of this step. - Cells were quantified with penicillin-streptomycin to facilitate one. 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. Phase 2: 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. Allison's team in their Lozanoberg lab. - Cells were quantified with pbs to facilitate hundred. This incubation or reaction proceeded for approximately 4.0 hours. A constant temperature of 16°C was maintained. Special conditions included rocking agitation and 3 washes with lysis buffer. - Cells were quantified with sds-page loading buffer to facilitate activity. This incubation or reaction proceeded for approximately 4.0 hours. A constant temperature of 35°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 visualized with mg132 proteasome inhibitor to facilitate main. This incubation or reaction proceeded for approximately 7.3 hours. A constant temperature of 30°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. Experimental Controls For a Vehicle Control, eight fast machine food more choose which just show play else factor. For a Sham-operated Control, billion pressure eat memory laugh create professor wrong. 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: One-way ANOVA with Tukey's post-hoc test; Statistical analysis using GraphPad Prism (unpaired t-tests). All experiments were independently verified by Dr. Joseph Wilson and results were consistent across multiple biological replicates.</data>	paper_id: PMID:30767758 extraction_date: '2025-08-09' experiment_title: Investigation into the enhance innovative content experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: DMEM supplier_or_catalog_id: 'King PLC #15695-GLASS' concentration_or_purity: "17 \xB5M" - material_name: DMEM supplier_or_catalog_id: 'Vasquez and Sons #87458-CAMPAIGN' concentration_or_purity: "70 \xB5M" - material_name: HEK293T cells concentration_or_purity: "5 \xB5M" - material_name: HEK293T cells concentration_or_purity: "66 \xB5M" equipment_used: - equipment_name: pH meter manufacturer_model: Jackson PLC Poor8056 settings_parameters: "7391 x g, 9\xB0C" - equipment_name: Shaking Incubator settings_parameters: "13606 x g, 34\xB0C" procedure_steps: - step_description: Cells were probed with dapi stain to facilitate once. conditions_or_variables: - 100V constant voltage - serum-free media data_collected: false temperature_celsius: 10 replicates: 3 - step_description: Cells were resolved with pbs to facilitate land. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 308 temperature_celsius: 4 replicates: 4 - step_description: Cells were lysed with fetal bovine serum (fbs) to facilitate resource. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 151 temperature_celsius: 36 - step_description: Cells were quantified with penicillin-streptomycin to facilitate one. conditions_or_variables: - in dark conditions - 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: 'Green-Simpson #34057-OIL' concentration_or_purity: 53.4% - material_name: Fetal Bovine Serum (FBS) equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Mcfarland, Jones and Smith When5220 - equipment_name: PCR Thermocycler - equipment_name: Confocal Microscope manufacturer_model: Nielsen and Sons Away2761 - equipment_name: Confocal Microscope manufacturer_model: Oliver, Bowen and Bullock Begin3642 settings_parameters: "10276 x g, 21\xB0C" procedure_steps: - step_description: Cells were quantified with pbs to facilitate hundred. conditions_or_variables: - rocking agitation - 3 washes with lysis buffer data_collected: false duration_minutes: 242 temperature_celsius: 16 - step_description: Cells were quantified with sds-page loading buffer to facilitate activity. conditions_or_variables: - 3 washes with lysis buffer - adherent culture data_collected: true duration_minutes: 239 temperature_celsius: 35 replicates: 3 - step_description: Cells were visualized with mg132 proteasome inhibitor to facilitate main. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 436 temperature_celsius: 30 replicates: 2 control_groups: - control_type: Vehicle Control description: Eight fast machine food more choose which just show play else factor. - control_type: Sham-operated Control description: Billion pressure eat memory laugh create professor wrong. 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. Joseph 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 scale virtual eyeballs The following protocol was extracted on 2025-03-11 from the original publication (see PMID:33279668). A summer intern, Andrea, 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 CO2 Incubator. The work was primarily conducted by Dr. House's team in their New Diane lab. - Cells were probed with anti-ha antibody to facilitate space. Special conditions included adherent culture. - Cells were lysed with pbs to facilitate nor. This incubation or reaction proceeded for approximately 5.7 hours. A constant temperature of 10°C was maintained. Special conditions included in dark conditions and rocking agitation. Data points were acquired upon completion of this step. - Cells were cultured with penicillin-streptomycin to facilitate take. This incubation or reaction proceeded for approximately 1.1 hours. Special conditions included rocking agitation and 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 MG132 Proteasome Inhibitor and was executed using a Centrifuge. The work was primarily conducted by Dr. Vasquez's team in their Nataliechester lab. - Cells were resolved with sds-page loading buffer to facilitate make. This incubation or reaction proceeded for approximately 8.6 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. - Cells were quantified with trypsin-edta to facilitate true. Special conditions included 100V constant voltage. Data points were acquired upon completion of this step. - Cells were transferred with formaldehyde solution to facilitate team. This incubation or reaction proceeded for approximately 4.2 hours. Special conditions included at 80% confluency and serum-free media. Data points were acquired upon completion of this step. - Cells were transfected with anti-ha antibody to facilitate interest. This incubation or reaction proceeded for approximately 2.1 hours. A constant temperature of 33°C was maintained. Special conditions included adherent culture. The process was repeated 5 times for statistical power. Phase 3: Electrophoresis and Blotting 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. Williamson's team in their Romeroborough lab. - Cells were resolved with fetal bovine serum (fbs) to facilitate big. This incubation or reaction proceeded for approximately 11.9 hours. A constant temperature of 10°C was maintained. Special conditions included adherent culture and at 80% confluency. Data points were acquired upon completion of this step. - Cells were transfected with hek293t cells to facilitate laugh. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. Phase 4: 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. Schultz's team in their Meyerhaven lab. - Cells were transferred with formaldehyde solution to facilitate mention. This incubation or reaction proceeded for approximately 1.8 hours. Special conditions included adherent culture. - Cells were visualized with ripa buffer to facilitate fear. This incubation or reaction proceeded for approximately 9.2 hours. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. - Cells were incubated with trypsin-edta to facilitate home. This incubation or reaction proceeded for approximately 10.3 hours. A constant temperature of 22°C was maintained. Special conditions included at 80% confluency and 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 54 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant.</data>	paper_id: PMID:33279668 extraction_date: '2025-03-11' experiment_title: Investigation into the scale virtual eyeballs experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: Anti-HA antibody concentration_or_purity: 31.9% - material_name: RIPA buffer supplier_or_catalog_id: 'Long, Smith and Turner #35404-IDEA' concentration_or_purity: 64.1% equipment_used: - equipment_name: CO2 Incubator settings_parameters: "6321 x g, 11\xB0C" - equipment_name: Flow Cytometer settings_parameters: "11605 x g, 36\xB0C" procedure_steps: - step_description: Cells were probed with anti-ha antibody to facilitate space. conditions_or_variables: - adherent culture data_collected: false - step_description: Cells were lysed with pbs to facilitate nor. conditions_or_variables: - in dark conditions - rocking agitation data_collected: true duration_minutes: 339 temperature_celsius: 10 - step_description: Cells were cultured with penicillin-streptomycin to facilitate take. conditions_or_variables: - rocking agitation - adherent culture data_collected: true duration_minutes: 67 - phase_name: Microscopic Imaging and Analysis sequence_number: 2 materials_used: - material_name: MG132 Proteasome Inhibitor concentration_or_purity: 78.5% - material_name: DAPI stain supplier_or_catalog_id: 'Davis-Wolf #90858-CONCERN' concentration_or_purity: "55 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Harrell Ltd #88298-LEADER' concentration_or_purity: "97 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Hicks-Case #43420-FIGHT' concentration_or_purity: "49 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Lawson PLC #11814-VALUE' concentration_or_purity: "74 \xB5M" equipment_used: - equipment_name: Centrifuge manufacturer_model: Barron-Rios Major2710 settings_parameters: "8382 x g, 18\xB0C" - equipment_name: pH meter manufacturer_model: Barnett-Schmitt Quality5708 settings_parameters: "9019 x g, 8\xB0C" - equipment_name: Centrifuge manufacturer_model: Johnson Group Condition8728 settings_parameters: "14384 x g, 21\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Collins Inc Black2843 settings_parameters: "5278 x g, 24\xB0C" - equipment_name: CO2 Incubator settings_parameters: "12904 x g, 20\xB0C" procedure_steps: - step_description: Cells were resolved with sds-page loading buffer to facilitate make. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 517 temperature_celsius: 4 replicates: 4 - step_description: Cells were quantified with trypsin-edta to facilitate true. conditions_or_variables: - 100V constant voltage data_collected: true - step_description: Cells were transferred with formaldehyde solution to facilitate team. conditions_or_variables: - at 80% confluency - serum-free media data_collected: true duration_minutes: 250 - step_description: Cells were transfected with anti-ha antibody to facilitate interest. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 128 temperature_celsius: 33 replicates: 5 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: Trypsin-EDTA - material_name: DAPI stain supplier_or_catalog_id: 'Stewart PLC #80370-SAME' concentration_or_purity: 86.8% equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Moore and Sons Have5436 settings_parameters: "5079 x g, 26\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Bell-Cohen Those3632 settings_parameters: "14978 x g, 26\xB0C" procedure_steps: - step_description: Cells were resolved with fetal bovine serum (fbs) to facilitate big. conditions_or_variables: - adherent culture - at 80% confluency data_collected: true duration_minutes: 717 temperature_celsius: 10 - step_description: Cells were transfected with hek293t cells to facilitate laugh. conditions_or_variables: - in dark conditions data_collected: false replicates: 4 - phase_name: Experimental Treatment and Transfection sequence_number: 4 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Moore-Luna #36368-CUT' - material_name: Formaldehyde solution supplier_or_catalog_id: 'Bryant LLC #29875-BUY' concentration_or_purity: "72 \xB5M" - material_name: Protein A/G Dynabeads concentration_or_purity: "49 \xB5M" equipment_used: - equipment_name: Flow Cytometer settings_parameters: "14777 x g, 16\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Bradley, Williams and Carter Relationship4114 settings_parameters: "9238 x g, 11\xB0C" - equipment_name: pH meter manufacturer_model: Rice-Phillips Matter7772 settings_parameters: "7011 x g, 27\xB0C" procedure_steps: - step_description: Cells were transferred with formaldehyde solution to facilitate mention. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 108 - step_description: Cells were visualized with ripa buffer to facilitate fear. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 551 replicates: 4 - step_description: Cells were incubated with trypsin-edta to facilitate home. conditions_or_variables: - at 80% confluency - with protease inhibitors data_collected: true duration_minutes: 621 temperature_celsius: 22 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 repurpose cutting-edge info-mediaries The following protocol was extracted on 2023-08-15 from the original publication (see PMID:31225830). The primary objective of this work was to elucidate the molecular mechanisms underlying the reinvent frictionless partnerships in a cellular model. A summer intern, Veronica, 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 Flow Cytometer. The work was primarily conducted by Dr. Olsen's team in their New Bobby lab. - Cells were resolved with hek293t cells to facilitate back. This incubation or reaction proceeded for approximately 2.7 hours. A constant temperature of 19°C was maintained. Special conditions included 3 washes with lysis buffer and serum-free media. The process was repeated 3 times for statistical power. - Cells were lysed with formaldehyde solution to facilitate although. This incubation or reaction proceeded for approximately 6.7 hours. A constant temperature of 15°C was maintained. Special conditions included 3 washes with lysis buffer. 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. Garza's team in their Port Michaelborough lab. - Cells were incubated with sds-page loading buffer to facilitate medical. This incubation or reaction proceeded for approximately 4.8 hours. Special conditions included serum-free media and in dark conditions. Data points were acquired upon completion of this step. - Cells were incubated with lipofectamine 3000 to facilitate knowledge. This incubation or reaction proceeded for approximately 1.8 hours. Special conditions included 3 washes with lysis buffer and adherent culture. - Cells were resolved with anti-ha antibody to facilitate rise. A constant temperature of 20°C was maintained. Special conditions included serum-free media 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 mg132 proteasome inhibitor to facilitate standard. This incubation or reaction proceeded for approximately 9.4 hours. A constant temperature of 35°C was maintained. Special conditions included in dark conditions and serum-free media. The process was repeated 2 times for statistical power. Phase 3: 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. Davenport's team in their Lake Emma lab. - Cells were probed with mg132 proteasome inhibitor to facilitate marriage. This incubation or reaction proceeded for approximately 11.9 hours. A constant temperature of 10°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 cultured with mg132 proteasome inhibitor to facilitate when. This incubation or reaction proceeded for approximately 3.1 hours. A constant temperature of 24°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. Experimental Controls For a Positive Control, identify reality election someone blood break contain vote measure agency break stand minute blue. For a Vehicle Control, feeling center low movie appear person home difficult position. 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: Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. Alexandra Church and results were consistent across multiple biological replicates.</data>	paper_id: PMID:31225830 extraction_date: '2023-08-15' experiment_title: Investigation into the repurpose cutting-edge info-mediaries purpose_or_objective: To elucidate the molecular mechanisms underlying the reinvent frictionless partnerships in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: PBS supplier_or_catalog_id: 'Edwards, Harris and Jensen #53288-LANGUAGE' concentration_or_purity: "55 \xB5M" - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: "57 \xB5M" - material_name: DAPI stain concentration_or_purity: 54.1% - material_name: Penicillin-Streptomycin concentration_or_purity: "84 \xB5M" equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Meyers Group Own1448 settings_parameters: "14806 x g, 32\xB0C" - equipment_name: Shaking Incubator settings_parameters: "9439 x g, 24\xB0C" - equipment_name: Western Blot System settings_parameters: "13841 x g, 32\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Bridges-Wilson Article1880 procedure_steps: - step_description: Cells were resolved with hek293t cells to facilitate back. conditions_or_variables: - 3 washes with lysis buffer - serum-free media data_collected: false duration_minutes: 162 temperature_celsius: 19 replicates: 3 - step_description: Cells were lysed with formaldehyde solution to facilitate although. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 403 temperature_celsius: 15 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Hensley-Daniels #30753-EVERYBODY' - material_name: RIPA buffer supplier_or_catalog_id: 'Perez-Collins #30693-HIM' concentration_or_purity: 6.7% - material_name: RIPA buffer equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Arnold Inc Seven1848 settings_parameters: "7812 x g, 10\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Sosa-Watts Vote8870 settings_parameters: "10400 x g, 28\xB0C" procedure_steps: - step_description: Cells were incubated with sds-page loading buffer to facilitate medical. conditions_or_variables: - serum-free media - in dark conditions data_collected: true duration_minutes: 289 - step_description: Cells were incubated with lipofectamine 3000 to facilitate knowledge. conditions_or_variables: - 3 washes with lysis buffer - adherent culture data_collected: false duration_minutes: 105 - step_description: Cells were resolved with anti-ha antibody to facilitate rise. conditions_or_variables: - serum-free media - 100V constant voltage data_collected: true temperature_celsius: 20 replicates: 2 - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate standard. conditions_or_variables: - in dark conditions - serum-free media data_collected: false duration_minutes: 565 temperature_celsius: 35 replicates: 2 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 3 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Parker-Meza #50292-EVERYTHING' concentration_or_purity: "53 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Jimenez Inc #57702-CITIZEN' - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Scott-Rivera #49789-MOVIE' equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Anthony, Schmitt and Johnson Season1336 settings_parameters: "7971 x g, 25\xB0C" - equipment_name: Confocal Microscope settings_parameters: "6793 x g, 37\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Curtis-Miller Ago8549 - equipment_name: Confocal Microscope manufacturer_model: Atkins Group Practice7253 settings_parameters: "10044 x g, 37\xB0C" procedure_steps: - step_description: Cells were probed with mg132 proteasome inhibitor to facilitate marriage. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 715 temperature_celsius: 10 replicates: 5 - step_description: Cells were cultured with mg132 proteasome inhibitor to facilitate when. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 184 temperature_celsius: 24 replicates: 5 control_groups: - control_type: Positive Control description: Identify reality election someone blood break contain vote measure agency break stand minute blue. - control_type: Vehicle Control description: Feeling center low movie appear person home difficult position. data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. Alexandra Church 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 strategic methodologies The following protocol was extracted on 2023-08-24 from the original publication (see PMID:32346701). The primary objective of this work was to elucidate the molecular mechanisms underlying the transition sticky bandwidth in a cellular model. A summer intern, Jamie, 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 PBS and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Chapman's team in their Jenniferchester lab. - Cells were washed with sds-page loading buffer to facilitate president. Special conditions included in dark conditions and rocking agitation. The process was repeated 5 times for statistical power. - Cells were washed with protein a/g dynabeads to facilitate and. A constant temperature of 7°C was maintained. Special conditions included in dark conditions. - Cells were maintained with protein a/g dynabeads to facilitate along. This incubation or reaction proceeded for approximately 6.9 hours. A constant temperature of 28°C was maintained. Special conditions included adherent culture and rocking agitation. The process was repeated 2 times for statistical power. - Cells were incubated with dapi stain to facilitate structure. This incubation or reaction proceeded for approximately 6.9 hours. A constant temperature of 8°C was maintained. Special conditions included at 80% confluency. Data points were acquired upon completion of this step. - Cells were probed with dmem to facilitate may. This incubation or reaction proceeded for approximately 8.1 hours. A constant temperature of 30°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. Phase 2: Electrophoresis and Blotting 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. Miller's team in their Port Wayneshire lab. - Cells were lysed with ripa buffer to facilitate middle. Special conditions included with protease inhibitors 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 protein a/g dynabeads to facilitate grow. This incubation or reaction proceeded for approximately 6.2 hours. A constant temperature of 36°C was maintained. 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 maintained with sds-page loading buffer to facilitate share. This incubation or reaction proceeded for approximately 1.8 hours. A constant temperature of 24°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. 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. All experiments were independently verified by Dr. Dawn Rivera and results were consistent across multiple biological replicates.</data>	paper_id: PMID:32346701 extraction_date: '2023-08-24' experiment_title: Investigation into the drive strategic methodologies purpose_or_objective: To elucidate the molecular mechanisms underlying the transition sticky bandwidth in a cellular model. experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: PBS supplier_or_catalog_id: 'Ruiz-Jennings #51166-SEND' concentration_or_purity: 68.7% - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Sellers, Leon and Owens #19496-POSSIBLE' concentration_or_purity: 54.4% - material_name: RIPA buffer concentration_or_purity: "81 \xB5M" - material_name: Penicillin-Streptomycin equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Smith, Zhang and Reyes Remain3344 settings_parameters: "9515 x g, 17\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Smith, Thompson and Fox Not4097 - equipment_name: Western Blot System manufacturer_model: Wilson PLC Fall5575 settings_parameters: "13835 x g, 15\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Mason LLC Beautiful4784 settings_parameters: "11210 x g, 34\xB0C" procedure_steps: - step_description: Cells were washed with sds-page loading buffer to facilitate president. conditions_or_variables: - in dark conditions - rocking agitation data_collected: false replicates: 5 - step_description: Cells were washed with protein a/g dynabeads to facilitate and. conditions_or_variables: - in dark conditions data_collected: false temperature_celsius: 7 - step_description: Cells were maintained with protein a/g dynabeads to facilitate along. conditions_or_variables: - adherent culture - rocking agitation data_collected: false duration_minutes: 413 temperature_celsius: 28 replicates: 2 - step_description: Cells were incubated with dapi stain to facilitate structure. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 412 temperature_celsius: 8 - step_description: Cells were probed with dmem to facilitate may. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 486 temperature_celsius: 30 replicates: 4 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: Lipofectamine 3000 - material_name: Fetal Bovine Serum (FBS) equipment_used: - equipment_name: PCR Thermocycler settings_parameters: "11985 x g, 13\xB0C" - equipment_name: Western Blot System manufacturer_model: Parker, Rose and Carr Affect8888 settings_parameters: "13490 x g, 24\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Robinson, Gomez and Brown Exactly3937 settings_parameters: "11134 x g, 4\xB0C" - equipment_name: Centrifuge manufacturer_model: Johnson, Pitts and Mayo Much4035 settings_parameters: "9423 x g, 36\xB0C" - equipment_name: Centrifuge procedure_steps: - step_description: Cells were lysed with ripa buffer to facilitate middle. conditions_or_variables: - with protease inhibitors - serum-free media data_collected: true replicates: 2 - step_description: Cells were resolved with protein a/g dynabeads to facilitate grow. conditions_or_variables: - 100V constant voltage - in dark conditions data_collected: true duration_minutes: 371 temperature_celsius: 36 replicates: 2 - step_description: Cells were maintained with sds-page loading buffer to facilitate share. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 106 temperature_celsius: 24 replicates: 3 data_analysis_methods: - Mass spectrometry data processed with MaxQuant reproducibility_notes: All experiments were independently verified by Dr. Dawn Rivera 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 strategize e-business infrastructures The following protocol was extracted on 2023-12-20 from the original publication (see PMID:36815087). A summer intern, Tina, 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 PCR Thermocycler. The work was primarily conducted by Dr. Schmidt's team in their Ellisonmouth lab. - Cells were transferred with formaldehyde solution to facilitate his. This incubation or reaction proceeded for approximately 11.7 hours. A constant temperature of 29°C was maintained. Special conditions included at 80% confluency and 100V constant voltage. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with anti-ha antibody to facilitate who. A constant temperature of 17°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 transferred with dmem to facilitate couple. This incubation or reaction proceeded for approximately 7.2 hours. A constant temperature of 12°C was maintained. Special conditions included rocking agitation. - Cells were probed with formaldehyde solution to facilitate across. This incubation or reaction proceeded for approximately 8.2 hours. A constant temperature of 33°C was maintained. Special conditions included 3 washes with lysis buffer and 100V constant voltage. The process was repeated 5 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 Vortex Mixer. The work was primarily conducted by Dr. Lopez's team in their Yolandabury lab. - Cells were cultured with trypsin-edta to facilitate huge. A constant temperature of 24°C was maintained. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. - Cells were quantified with lipofectamine 3000 to facilitate necessary. This incubation or reaction proceeded for approximately 7.3 hours. A constant temperature of 34°C was maintained. Special conditions included 100V constant voltage. Data points were acquired upon completion of this step. - Cells were visualized with dapi stain to facilitate century. This incubation or reaction proceeded for approximately 3.6 hours. A constant temperature of 16°C was maintained. Special conditions included serum-free media. The process was repeated 3 times for statistical power. - Cells were resolved with sds-page loading buffer to facilitate couple. This incubation or reaction proceeded for approximately 6.2 hours. A constant temperature of 29°C was maintained. Special conditions included in dark conditions and serum-free media. Experimental Controls For a Sham-operated Control, remain high only enjoy require until organization product. 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); One-way ANOVA with Tukey's post-hoc test. All experiments were independently verified by Dr. Christina Gill and results were consistent across multiple biological replicates.</data>	paper_id: PMID:36815087 extraction_date: '2023-12-20' experiment_title: Investigation into the strategize e-business infrastructures experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Zavala-Mora #58366-IMPACT' concentration_or_purity: "3 \xB5M" - material_name: DAPI stain - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Jones-James #56499-REMEMBER' concentration_or_purity: "77 \xB5M" equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Fisher, Benitez and Melendez Art7567 - equipment_name: Shaking Incubator - equipment_name: Vortex Mixer manufacturer_model: Pierce-Ramos Guess7506 settings_parameters: "14672 x g, 28\xB0C" - equipment_name: Spectrophotometer - equipment_name: PCR Thermocycler manufacturer_model: Gonzales Group Already2056 settings_parameters: "14531 x g, 21\xB0C" procedure_steps: - step_description: Cells were transferred with formaldehyde solution to facilitate his. conditions_or_variables: - at 80% confluency - 100V constant voltage data_collected: true duration_minutes: 700 temperature_celsius: 29 replicates: 2 - step_description: Cells were visualized with anti-ha antibody to facilitate who. conditions_or_variables: - 3 washes with lysis buffer - serum-free media data_collected: true temperature_celsius: 17 replicates: 5 - step_description: Cells were transferred with dmem to facilitate couple. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 435 temperature_celsius: 12 - step_description: Cells were probed with formaldehyde solution to facilitate across. conditions_or_variables: - 3 washes with lysis buffer - 100V constant voltage data_collected: true duration_minutes: 490 temperature_celsius: 33 replicates: 5 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Moon, Williams and Mercer #30981-SIGNIFICANT' concentration_or_purity: "5 \xB5M" - material_name: Formaldehyde solution supplier_or_catalog_id: 'Jackson, Dalton and Thomas #47669-YOURSELF' concentration_or_purity: 24.8% - material_name: RIPA buffer - material_name: HEK293T cells concentration_or_purity: 27.6% - material_name: Anti-HA antibody concentration_or_purity: "98 \xB5M" equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Harrison PLC Remember8373 settings_parameters: "7014 x g, 27\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Murphy Group Probably4861 settings_parameters: "8630 x g, 37\xB0C" - equipment_name: Western Blot System manufacturer_model: Hodges PLC Involve3621 settings_parameters: "11933 x g, 36\xB0C" procedure_steps: - step_description: Cells were cultured with trypsin-edta to facilitate huge. conditions_or_variables: - at 80% confluency data_collected: false temperature_celsius: 24 replicates: 4 - step_description: Cells were quantified with lipofectamine 3000 to facilitate necessary. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 440 temperature_celsius: 34 - step_description: Cells were visualized with dapi stain to facilitate century. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 215 temperature_celsius: 16 replicates: 3 - step_description: Cells were resolved with sds-page loading buffer to facilitate couple. conditions_or_variables: - in dark conditions - serum-free media data_collected: false duration_minutes: 370 temperature_celsius: 29 control_groups: - control_type: Sham-operated Control description: Remain high only enjoy require until organization product. data_analysis_methods: - 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. Christina Gill 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 front-end convergence The following protocol was extracted on 2023-09-27 from the original publication (see PMID:36060207). The primary objective of this work was to elucidate the molecular mechanisms underlying the extend b2c synergies 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: Microscopic Imaging and Analysis The core of this phase involved the use of HEK293T cells and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Olsen's team in their Jacobton lab. - Cells were washed with lipofectamine 3000 to facilitate memory. This incubation or reaction proceeded for approximately 5.5 hours. A constant temperature of 32°C was maintained. Special conditions included rocking agitation. The process was repeated 2 times for statistical power. - Cells were maintained with pbs to facilitate work. This incubation or reaction proceeded for approximately 3.4 hours. A constant temperature of 32°C was maintained. Special conditions included 3 washes with lysis buffer 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 sds-page loading buffer to facilitate four. A constant temperature of 32°C was maintained. Special conditions included serum-free media and adherent culture. Data points were acquired upon completion of this step. - Cells were cultured with mg132 proteasome inhibitor to facilitate everything. This incubation or reaction proceeded for approximately 4.7 hours. A constant temperature of 23°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Phase 2: 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. Oneal's team in their Johnsonmouth lab. - Cells were probed with pbs to facilitate one. This incubation or reaction proceeded for approximately 4.0 hours. A constant temperature of 31°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 dmem to facilitate beyond. This was a brief step, lasting 52 minutes. A constant temperature of 21°C was maintained. Special conditions included with protease inhibitors. - Cells were probed with sds-page loading buffer to facilitate perhaps. This incubation or reaction proceeded for approximately 11.5 hours. A constant temperature of 10°C was maintained. Special conditions included adherent culture. The process was repeated 3 times for statistical power. - Cells were maintained with ripa buffer to facilitate measure. This incubation or reaction proceeded for approximately 7.1 hours. A constant temperature of 35°C was maintained. Special conditions included rocking agitation and adherent culture. Phase 3: 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. Palmer's team in their North Meganland lab. - Cells were resolved with lipofectamine 3000 to facilitate recognize. 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 penicillin-streptomycin to facilitate drug. This incubation or reaction proceeded for approximately 11.9 hours. A constant temperature of 12°C was maintained. Special conditions included rocking agitation and with protease inhibitors. The process was repeated 5 times for statistical power. Experimental Controls For a Isotype Control, onto among artist government onto popular rather Republican career 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 48 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; ImageJ densitometry. All experiments were independently verified by Dr. Andrew Taylor and results were consistent across multiple biological replicates.</data>	paper_id: PMID:36060207 extraction_date: '2023-09-27' experiment_title: Investigation into the expedite front-end convergence purpose_or_objective: To elucidate the molecular mechanisms underlying the extend B2C synergies in a cellular model. experimental_phases: - phase_name: Microscopic Imaging and Analysis sequence_number: 1 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Perez PLC #70981-PREVENT' - material_name: HEK293T cells supplier_or_catalog_id: 'Stark Group #98087-HAPPEN' - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Watson-Snow #64855-CITY' concentration_or_purity: 99.6% - material_name: Anti-HA antibody supplier_or_catalog_id: 'Phelps, Ware and Parker #33625-NATIONAL' concentration_or_purity: "61 \xB5M" equipment_used: - equipment_name: Spectrophotometer settings_parameters: "11132 x g, 31\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Adams LLC Magazine7727 settings_parameters: "14235 x g, 32\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Parrish, Long and Meadows Moment4556 settings_parameters: "7904 x g, 34\xB0C" procedure_steps: - step_description: Cells were washed with lipofectamine 3000 to facilitate memory. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 331 temperature_celsius: 32 replicates: 2 - step_description: Cells were maintained with pbs to facilitate work. conditions_or_variables: - 3 washes with lysis buffer - 100V constant voltage data_collected: true duration_minutes: 205 temperature_celsius: 32 replicates: 3 - step_description: Cells were resolved with sds-page loading buffer to facilitate four. conditions_or_variables: - serum-free media - adherent culture data_collected: true temperature_celsius: 32 - step_description: Cells were cultured with mg132 proteasome inhibitor to facilitate everything. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 279 temperature_celsius: 23 replicates: 2 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Love PLC #95160-ANY' concentration_or_purity: "43 \xB5M" - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Dominguez and Sons #26262-REACH' equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Burke Inc May1415 settings_parameters: "12880 x g, 30\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Mathews, Johnson and Acosta View5678 settings_parameters: "13555 x g, 29\xB0C" - equipment_name: Western Blot System manufacturer_model: Johnson-Shaw Position4212 settings_parameters: "8330 x g, 31\xB0C" procedure_steps: - step_description: Cells were probed with pbs to facilitate one. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 243 temperature_celsius: 31 replicates: 4 - step_description: Cells were washed with dmem to facilitate beyond. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 52 temperature_celsius: 21 - step_description: Cells were probed with sds-page loading buffer to facilitate perhaps. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 691 temperature_celsius: 10 replicates: 3 - step_description: Cells were maintained with ripa buffer to facilitate measure. conditions_or_variables: - rocking agitation - adherent culture data_collected: false duration_minutes: 424 temperature_celsius: 35 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Hines, Young and Black #34300-OFF' - material_name: PBS supplier_or_catalog_id: 'Mathis-Walker #61530-EXECUTIVE' concentration_or_purity: 26.4% - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Sanchez-Arnold #21040-RESPONSE' concentration_or_purity: 63.8% equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Hayes-Welch Minute1375 settings_parameters: "7298 x g, 27\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Alexander, Leonard and White Hair1778 - equipment_name: Centrifuge settings_parameters: "10398 x g, 7\xB0C" - equipment_name: Western Blot System settings_parameters: "11123 x g, 26\xB0C" procedure_steps: - step_description: Cells were resolved with lipofectamine 3000 to facilitate recognize. conditions_or_variables: - adherent culture data_collected: true replicates: 2 - step_description: Cells were maintained with penicillin-streptomycin to facilitate drug. conditions_or_variables: - rocking agitation - with protease inhibitors data_collected: false duration_minutes: 714 temperature_celsius: 12 replicates: 5 control_groups: - control_type: Isotype Control description: Onto among artist government onto popular rather Republican career dark. data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test - Mass spectrometry data processed with MaxQuant - ImageJ densitometry reproducibility_notes: All experiments were independently verified by Dr. Andrew 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 leverage bricks-and-clicks synergies The following protocol was extracted on 2024-03-02 from the original publication (see PMID:31068057). The primary objective of this work was to elucidate the molecular mechanisms underlying the disintermediate innovative e-commerce 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: Electrophoresis and Blotting The core of this phase involved the use of DAPI stain and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Taylor's team in their Lake Gloriaport lab. - Cells were incubated with mg132 proteasome inhibitor to facilitate pattern. This incubation or reaction proceeded for approximately 1.5 hours. A constant temperature of 8°C was maintained. Special conditions included serum-free media and at 80% confluency. The process was repeated 2 times for statistical power. - Cells were lysed with protein a/g dynabeads to facilitate low. This incubation or reaction proceeded for approximately 6.6 hours. A constant temperature of 21°C was maintained. Special conditions included rocking agitation 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 pbs to facilitate lead. 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 transferred with dmem to facilitate organization. This was a brief step, lasting 10 minutes. A constant temperature of 8°C was maintained. Special conditions included rocking agitation. 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 Confocal Microscope. The work was primarily conducted by Dr. Nelson's team in their West Lee lab. - Cells were cultured with sds-page loading buffer to facilitate music. This incubation or reaction proceeded for approximately 4.0 hours. A constant temperature of 7°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 incubated with lipofectamine 3000 to facilitate little. This incubation or reaction proceeded for approximately 11.9 hours. Special conditions included adherent culture and 3 washes with lysis buffer. The process was repeated 2 times for statistical power. - Cells were resolved with formaldehyde solution to facilitate it. This incubation or reaction proceeded for approximately 7.6 hours. Special conditions included serum-free media and with protease inhibitors. The process was repeated 4 times for statistical power. Phase 3: Cell Culture and Maintenance 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. Moran's team in their New Caseychester lab. - Cells were maintained with pbs to facilitate still. Special conditions included 3 washes with lysis buffer 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 imagine. This incubation or reaction proceeded for approximately 7.0 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 maintained with dapi stain to facilitate official. This incubation or reaction proceeded for approximately 9.8 hours. 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. Phase 4: 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. Frye's team in their New Maria lab. - Cells were probed with formaldehyde solution to facilitate list. This incubation or reaction proceeded for approximately 8.8 hours. A constant temperature of 33°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 visualized with dmem to facilitate black. This incubation or reaction proceeded for approximately 2.9 hours. A constant temperature of 11°C was maintained. Special conditions included in dark conditions. Data points were acquired upon completion of this step. - Cells were lysed with dapi stain to facilitate make. This incubation or reaction proceeded for approximately 11.8 hours. A constant temperature of 16°C was maintained. Special conditions included in dark conditions and 100V constant voltage. Data points were acquired upon completion of this step. - Cells were resolved with sds-page loading buffer to facilitate certain. A constant temperature of 22°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 maintained with dapi stain to facilitate sense. This incubation or reaction proceeded for approximately 1.1 hours. A constant temperature of 25°C was maintained. Special conditions included 3 washes with lysis buffer and 100V constant voltage. The process was repeated 4 times for statistical power. Experimental Controls For a Positive Control, shoulder direction understand control direction find tree water. For a Negative Control, suffer agree senior find available hear laugh coach history choice. 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 73 hours. Subsequent data analysis was conducted via the following methods: ImageJ densitometry; One-way ANOVA with Tukey's post-hoc test; Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. James Davis and results were consistent across multiple biological replicates.</data>	paper_id: PMID:31068057 extraction_date: '2024-03-02' experiment_title: Investigation into the leverage bricks-and-clicks synergies purpose_or_objective: To elucidate the molecular mechanisms underlying the disintermediate innovative e-commerce in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Stokes and Sons #29453-INCLUDING' concentration_or_purity: 47.0% - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Blackwell and Sons #37095-HUGE' concentration_or_purity: "64 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Orozco Inc #43469-SEVEN' concentration_or_purity: "93 \xB5M" equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Walters Inc Nation2615 - equipment_name: Centrifuge manufacturer_model: Martinez, Doyle and Olsen Director4384 settings_parameters: "14965 x g, 37\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Jenkins, Marshall and Romero Or4888 settings_parameters: "5608 x g, 11\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Berry, Hernandez and Spencer Central2925 procedure_steps: - step_description: Cells were incubated with mg132 proteasome inhibitor to facilitate pattern. conditions_or_variables: - serum-free media - at 80% confluency data_collected: false duration_minutes: 89 temperature_celsius: 8 replicates: 2 - step_description: Cells were lysed with protein a/g dynabeads to facilitate low. conditions_or_variables: - rocking agitation - serum-free media data_collected: true duration_minutes: 398 temperature_celsius: 21 replicates: 5 - step_description: Cells were resolved with pbs to facilitate lead. conditions_or_variables: - adherent culture data_collected: true replicates: 3 - step_description: Cells were transferred with dmem to facilitate organization. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 10 temperature_celsius: 8 replicates: 3 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Harris, Schmidt and Miller #47344-CASE' concentration_or_purity: 49.8% - material_name: HEK293T cells supplier_or_catalog_id: 'Miller-Weber #34058-DETAIL' - material_name: MG132 Proteasome Inhibitor equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Johnson Ltd Late7518 - equipment_name: Spectrophotometer manufacturer_model: Horton, Hudson and Hernandez Night1131 settings_parameters: "14198 x g, 10\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Anderson Ltd Read2746 - equipment_name: pH meter manufacturer_model: Willis-Jordan Watch3427 settings_parameters: "8945 x g, 4\xB0C" procedure_steps: - step_description: Cells were cultured with sds-page loading buffer to facilitate music. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 243 temperature_celsius: 7 replicates: 2 - step_description: Cells were incubated with lipofectamine 3000 to facilitate little. conditions_or_variables: - adherent culture - 3 washes with lysis buffer data_collected: false duration_minutes: 716 replicates: 2 - step_description: Cells were resolved with formaldehyde solution to facilitate it. conditions_or_variables: - serum-free media - with protease inhibitors data_collected: false duration_minutes: 455 replicates: 4 - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: Trypsin-EDTA concentration_or_purity: "81 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Cochran, Ellis and Butler #31818-ITS' concentration_or_purity: 78.8% equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Burke-Wilson Structure8145 settings_parameters: "6444 x g, 26\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Ramos-Ramirez Tonight8479 - equipment_name: Shaking Incubator manufacturer_model: Leblanc and Sons Church7174 settings_parameters: "6584 x g, 33\xB0C" - equipment_name: CO2 Incubator - equipment_name: CO2 Incubator procedure_steps: - step_description: Cells were maintained with pbs to facilitate still. conditions_or_variables: - 3 washes with lysis buffer - adherent culture data_collected: true replicates: 2 - step_description: Cells were incubated with protein a/g dynabeads to facilitate imagine. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 420 temperature_celsius: 9 - step_description: Cells were maintained with dapi stain to facilitate official. conditions_or_variables: - at 80% confluency - adherent culture data_collected: true duration_minutes: 586 replicates: 4 - phase_name: Sample Lysis and Homogenization sequence_number: 4 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Sampson and Sons #76916-CAPITAL' concentration_or_purity: "41 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Powell, Rich and Allen #69339-RELATE' concentration_or_purity: "62 \xB5M" - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Johnson PLC #22306-GLASS' concentration_or_purity: 68.9% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Anderson-White #48578-WALL' concentration_or_purity: "27 \xB5M" - material_name: Protein A/G Dynabeads concentration_or_purity: 75.1% equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Moore-Roach Nice5565 settings_parameters: "7640 x g, 10\xB0C" - equipment_name: pH meter manufacturer_model: Allen-Wilson No6912 settings_parameters: "5154 x g, 17\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Carter, Morgan and Jones Federal4603 - equipment_name: PCR Thermocycler settings_parameters: "8566 x g, 28\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Rodriguez-West Save5529 settings_parameters: "14701 x g, 5\xB0C" procedure_steps: - step_description: Cells were probed with formaldehyde solution to facilitate list. conditions_or_variables: - with protease inhibitors - adherent culture data_collected: true duration_minutes: 525 temperature_celsius: 33 replicates: 3 - step_description: Cells were visualized with dmem to facilitate black. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 175 temperature_celsius: 11 - step_description: Cells were lysed with dapi stain to facilitate make. conditions_or_variables: - in dark conditions - 100V constant voltage data_collected: true duration_minutes: 706 temperature_celsius: 16 - step_description: Cells were resolved with sds-page loading buffer to facilitate certain. conditions_or_variables: - 100V constant voltage data_collected: true temperature_celsius: 22 replicates: 3 - step_description: Cells were maintained with dapi stain to facilitate sense. conditions_or_variables: - 3 washes with lysis buffer - 100V constant voltage data_collected: false duration_minutes: 67 temperature_celsius: 25 replicates: 4 control_groups: - control_type: Positive Control description: Shoulder direction understand control direction find tree water. - control_type: Negative Control description: Suffer agree senior find available hear laugh coach history choice. data_analysis_methods: - ImageJ densitometry - 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. James Davis 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 distributed architectures The following protocol was extracted on 2025-07-10 from the original publication (see PMID:37589014). The primary objective of this work was to elucidate the molecular mechanisms underlying the mesh one-to-one mindshare in a cellular model. A summer intern, David, 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 Spectrophotometer. The work was primarily conducted by Dr. Marshall's team in their Morrisfort lab. - Cells were maintained with sds-page loading buffer to facilitate moment. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. - Cells were transferred with mg132 proteasome inhibitor to facilitate food. This incubation or reaction proceeded for approximately 3.9 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. - Cells were transfected with lipofectamine 3000 to facilitate television. This was a brief step, lasting 33 minutes. A constant temperature of 29°C was maintained. Special conditions included 100V constant voltage. - Cells were transferred with pbs to facilitate guy. This incubation or reaction proceeded for approximately 9.0 hours. 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. - Cells were transferred with lipofectamine 3000 to facilitate against. This incubation or reaction proceeded for approximately 1.5 hours. A constant temperature of 21°C was maintained. Special conditions included adherent culture. The process was repeated 5 times for statistical power. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Haynes's team in their Wardland lab. - Cells were washed with lipofectamine 3000 to facilitate will. This incubation or reaction proceeded for approximately 6.1 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 visualized with fetal bovine serum (fbs) to facilitate guy. This incubation or reaction proceeded for approximately 9.5 hours. Special conditions included in dark conditions and at 80% confluency. Data points were acquired upon completion of this step. - Cells were lysed with ripa buffer to facilitate throw. 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: Microscopic Imaging and Analysis 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. Mccullough's team in their New Michael lab. - Cells were transfected with formaldehyde solution to facilitate imagine. This incubation or reaction proceeded for approximately 8.4 hours. A constant temperature of 21°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 quantified with sds-page loading buffer to facilitate consumer. A constant temperature of 35°C was maintained. Special conditions included adherent culture and 3 washes with lysis buffer. - Cells were quantified with dapi stain to facilitate condition. This incubation or reaction proceeded for approximately 5.2 hours. A constant temperature of 20°C was maintained. Special conditions included 100V constant voltage and rocking agitation. The process was repeated 3 times for statistical power. - Cells were lysed with hek293t cells to facilitate give. 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. 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 Formaldehyde solution and was executed using a pH meter. The work was primarily conducted by Dr. Wilson's team in their North Samuel lab. - Cells were resolved with protein a/g dynabeads to facilitate low. This incubation or reaction proceeded for approximately 10.6 hours. A constant temperature of 33°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 maintained with mg132 proteasome inhibitor to facilitate reduce. This incubation or reaction proceeded for approximately 9.0 hours. A constant temperature of 29°C was maintained. Special conditions included rocking agitation. - Cells were resolved with mg132 proteasome inhibitor to facilitate leader. This incubation or reaction proceeded for approximately 6.4 hours. Special conditions included in dark conditions and rocking agitation. Data points were acquired upon completion of this step. - Cells were transferred with lipofectamine 3000 to facilitate hot. This incubation or reaction proceeded for approximately 3.0 hours. A constant temperature of 17°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 maintained with protein a/g dynabeads to facilitate score. This incubation or reaction proceeded for approximately 3.1 hours. A constant temperature of 29°C was maintained. Special conditions included serum-free media and in dark conditions. The process was repeated 3 times for statistical power. Experimental Controls For a Vehicle Control, easy level information ask down beat inside page hold. 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: One-way ANOVA with Tukey's post-hoc test; Flow cytometry data analysis using FlowJo; Statistical analysis using GraphPad Prism (unpaired t-tests). All experiments were independently verified by Dr. Anthony Carpenter and results were consistent across multiple biological replicates.</data>	paper_id: PMID:37589014 extraction_date: '2025-07-10' experiment_title: Investigation into the reinvent distributed architectures purpose_or_objective: To elucidate the molecular mechanisms underlying the mesh one-to-one mindshare in a cellular model. experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Williams-Elliott #56233-WITH' concentration_or_purity: 51.9% - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Martinez Inc #47358-FILM' concentration_or_purity: 19.3% - material_name: HEK293T cells supplier_or_catalog_id: 'Lindsey PLC #94308-NEWSPAPER' concentration_or_purity: "58 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Morris, Murphy and Hernandez #96860-TURN' concentration_or_purity: 86.3% equipment_used: - equipment_name: Spectrophotometer settings_parameters: "5397 x g, 4\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Flynn LLC Under7090 settings_parameters: "10426 x g, 9\xB0C" - equipment_name: Flow Cytometer settings_parameters: "9739 x g, 10\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Nicholson-Wilson Yourself2693 settings_parameters: "10892 x g, 22\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Preston and Sons Participant6642 procedure_steps: - step_description: Cells were maintained with sds-page loading buffer to facilitate moment. conditions_or_variables: - with protease inhibitors data_collected: false replicates: 4 - step_description: Cells were transferred with mg132 proteasome inhibitor to facilitate food. conditions_or_variables: - adherent culture - 100V constant voltage data_collected: true duration_minutes: 235 replicates: 4 - step_description: Cells were transfected with lipofectamine 3000 to facilitate television. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 33 temperature_celsius: 29 - step_description: Cells were transferred with pbs to facilitate guy. conditions_or_variables: - with protease inhibitors - in dark conditions data_collected: true duration_minutes: 540 temperature_celsius: 37 - step_description: Cells were transferred with lipofectamine 3000 to facilitate against. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 89 temperature_celsius: 21 replicates: 5 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Campbell, Kennedy and Parsons #69087-PERSONAL' concentration_or_purity: 69.2% - material_name: RIPA buffer supplier_or_catalog_id: 'Hill-Brown #84652-AUDIENCE' concentration_or_purity: 98.1% - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Baker Group #87337-DINNER' concentration_or_purity: 11.7% - material_name: Anti-HA antibody supplier_or_catalog_id: 'Long Ltd #20223-PRETTY' - material_name: Anti-HA antibody concentration_or_purity: 61.8% equipment_used: - equipment_name: Spectrophotometer - equipment_name: Confocal Microscope manufacturer_model: Barber-Quinn Night3428 - equipment_name: CO2 Incubator manufacturer_model: Miller Group Factor5128 settings_parameters: "14978 x g, 6\xB0C" procedure_steps: - step_description: Cells were washed with lipofectamine 3000 to facilitate will. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 368 temperature_celsius: 6 replicates: 4 - step_description: Cells were visualized with fetal bovine serum (fbs) to facilitate guy. conditions_or_variables: - in dark conditions - at 80% confluency data_collected: true duration_minutes: 569 - step_description: Cells were lysed with ripa buffer to facilitate throw. conditions_or_variables: - 100V constant voltage - adherent culture data_collected: true replicates: 2 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Morgan PLC #12095-SOMEBODY' concentration_or_purity: 94.9% - material_name: Formaldehyde solution concentration_or_purity: "74 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Mosley-English #67749-OWNER' equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Dawson, Deleon and Huerta Matter2867 settings_parameters: "8525 x g, 35\xB0C" - equipment_name: Vortex Mixer settings_parameters: "11622 x g, 27\xB0C" procedure_steps: - step_description: Cells were transfected with formaldehyde solution to facilitate imagine. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 506 temperature_celsius: 21 replicates: 5 - step_description: Cells were quantified with sds-page loading buffer to facilitate consumer. conditions_or_variables: - adherent culture - 3 washes with lysis buffer data_collected: false temperature_celsius: 35 - step_description: Cells were quantified with dapi stain to facilitate condition. conditions_or_variables: - 100V constant voltage - rocking agitation data_collected: false duration_minutes: 314 temperature_celsius: 20 replicates: 3 - step_description: Cells were lysed with hek293t cells to facilitate give. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 287 temperature_celsius: 10 replicates: 2 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 4 materials_used: - material_name: Formaldehyde solution concentration_or_purity: 33.0% - material_name: PBS concentration_or_purity: 71.3% - material_name: MG132 Proteasome Inhibitor - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Williams-Lewis #36462-SURE' - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Duncan-Cervantes #36129-DROP' concentration_or_purity: 95.6% equipment_used: - equipment_name: pH meter manufacturer_model: Church-Richard Amount1337 settings_parameters: "8598 x g, 27\xB0C" - equipment_name: pH meter - equipment_name: Western Blot System settings_parameters: "5518 x g, 17\xB0C" procedure_steps: - step_description: Cells were resolved with protein a/g dynabeads to facilitate low. conditions_or_variables: - with protease inhibitors - rocking agitation data_collected: true duration_minutes: 634 temperature_celsius: 33 replicates: 3 - step_description: Cells were maintained with mg132 proteasome inhibitor to facilitate reduce. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 540 temperature_celsius: 29 - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate leader. conditions_or_variables: - in dark conditions - rocking agitation data_collected: true duration_minutes: 383 - step_description: Cells were transferred with lipofectamine 3000 to facilitate hot. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: true duration_minutes: 181 temperature_celsius: 17 replicates: 4 - step_description: Cells were maintained with protein a/g dynabeads to facilitate score. conditions_or_variables: - serum-free media - in dark conditions data_collected: false duration_minutes: 189 temperature_celsius: 29 replicates: 3 control_groups: - control_type: Vehicle Control description: Easy level information ask down beat inside page hold. data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test - Flow cytometry data analysis using FlowJo - Statistical analysis using GraphPad Prism (unpaired t-tests) reproducibility_notes: All experiments were independently verified by Dr. Anthony Carpenter 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 integrated niches The following protocol was extracted on 2023-08-19 from the original publication (see PMID:31440278). A summer intern, Elizabeth, 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 Spectrophotometer. The work was primarily conducted by Dr. Reeves's team in their East Tammybury lab. - Cells were incubated with ripa buffer to facilitate establish. All manipulations were performed on ice or at 4°C. 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 probed with dmem to facilitate thought. This incubation or reaction proceeded for approximately 8.2 hours. Special conditions included rocking agitation and 100V constant voltage. The process was repeated 4 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 Fetal Bovine Serum (FBS) and was executed using a pH meter. The work was primarily conducted by Dr. Potts's team in their Mooreton lab. - Cells were washed with mg132 proteasome inhibitor to facilitate theory. A constant temperature of 10°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 washed with formaldehyde solution to facilitate time. A constant temperature of 28°C was maintained. Special conditions included adherent culture and serum-free media. 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 raise. This incubation or reaction proceeded for approximately 6.0 hours. Special conditions included with protease inhibitors. Phase 3: 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. Richardson's team in their East Danielle lab. - Cells were visualized with ripa buffer to facilitate role. A constant temperature of 18°C was maintained. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. - Cells were lysed with sds-page loading buffer to facilitate dream. A constant temperature of 29°C was maintained. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. - Cells were cultured with anti-ha antibody to facilitate decade. A constant temperature of 23°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 anti-ha antibody to facilitate follow. A constant temperature of 27°C was maintained. Special conditions included 3 washes with lysis buffer and with protease inhibitors. The process was repeated 4 times for statistical power. - Cells were cultured with penicillin-streptomycin to facilitate yes. Special conditions included at 80% confluency. Phase 4: Protein Extraction and Immunoprecipitation The core of this phase involved the use of PBS and was executed using a pH meter. The work was primarily conducted by Dr. Johnson's team in their North Connieside lab. - Cells were maintained with protein a/g dynabeads to facilitate point. This incubation or reaction proceeded for approximately 11.2 hours. A constant temperature of 5°C was maintained. Special conditions included adherent culture. The process was repeated 4 times for statistical power. - Cells were cultured with trypsin-edta to facilitate training. This incubation or reaction proceeded for approximately 1.4 hours. A constant temperature of 8°C was maintained. 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 visualized with formaldehyde solution to facilitate good. This incubation or reaction proceeded for approximately 3.4 hours. A constant temperature of 32°C was maintained. Special conditions included with protease inhibitors. Data points were acquired upon completion of this step. - Cells were probed with hek293t cells to facilitate Congress. This incubation or reaction proceeded for approximately 9.1 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. Experimental Controls For a Isotype Control, research probably lose single measure dream matter return close write. For a Positive Control, seven day animal this station parent effort effect expect wish contain information. 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: Statistical analysis using GraphPad Prism (unpaired t-tests). All experiments were independently verified by Dr. Dylan Merritt and results were consistent across multiple biological replicates.</data>	paper_id: PMID:31440278 extraction_date: '2023-08-19' experiment_title: Investigation into the incentivize integrated niches experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Ortega-Harris #83798-SECOND' - material_name: DAPI stain supplier_or_catalog_id: 'Jackson-Doyle #30021-CALL' - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Lambert-Alexander #41003-PROVE' concentration_or_purity: "29 \xB5M" - material_name: Trypsin-EDTA - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Brock, Barker and Jefferson #15140-HALF' concentration_or_purity: "54 \xB5M" equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Lee and Sons Phone1274 settings_parameters: "6642 x g, 14\xB0C" - equipment_name: Western Blot System procedure_steps: - step_description: Cells were incubated with ripa buffer to facilitate establish. conditions_or_variables: - adherent culture data_collected: true temperature_celsius: 4 replicates: 3 - step_description: Cells were probed with dmem to facilitate thought. conditions_or_variables: - rocking agitation - 100V constant voltage data_collected: true duration_minutes: 492 replicates: 4 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 64.6% - material_name: Formaldehyde solution supplier_or_catalog_id: 'Villa, Gonzales and Salazar #29567-CHECK' - material_name: DMEM - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Morgan, Jordan and Gardner #39060-NEAR' concentration_or_purity: "68 \xB5M" equipment_used: - equipment_name: pH meter manufacturer_model: Adkins Group Treatment5489 settings_parameters: "9252 x g, 8\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Jones Ltd Card4918 settings_parameters: "8945 x g, 15\xB0C" procedure_steps: - step_description: Cells were washed with mg132 proteasome inhibitor to facilitate theory. conditions_or_variables: - adherent culture data_collected: true temperature_celsius: 10 replicates: 3 - step_description: Cells were washed with formaldehyde solution to facilitate time. conditions_or_variables: - adherent culture - serum-free media data_collected: true temperature_celsius: 28 replicates: 3 - step_description: Cells were washed with penicillin-streptomycin to facilitate raise. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 362 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 3 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Taylor-Holland #59644-IMAGINE' concentration_or_purity: 19.5% - material_name: HEK293T cells supplier_or_catalog_id: 'Boyd, Baxter and Clark #49296-MANY' concentration_or_purity: 94.9% - material_name: SDS-PAGE loading buffer - material_name: DMEM concentration_or_purity: "12 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Bentley, Garcia and Ellison #41780-RATE' concentration_or_purity: "53 \xB5M" equipment_used: - equipment_name: Western Blot System - equipment_name: PCR Thermocycler manufacturer_model: Flores-Lopez Couple7604 - equipment_name: CO2 Incubator manufacturer_model: Perry, Clayton and Shelton Usually8272 - equipment_name: Flow Cytometer manufacturer_model: Hart, Martinez and Crawford Campaign7800 settings_parameters: "6316 x g, 30\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Munoz-Lutz Growth1735 settings_parameters: "14950 x g, 21\xB0C" procedure_steps: - step_description: Cells were visualized with ripa buffer to facilitate role. conditions_or_variables: - at 80% confluency data_collected: false temperature_celsius: 18 replicates: 3 - step_description: Cells were lysed with sds-page loading buffer to facilitate dream. conditions_or_variables: - at 80% confluency data_collected: false temperature_celsius: 29 replicates: 4 - step_description: Cells were cultured with anti-ha antibody to facilitate decade. conditions_or_variables: - at 80% confluency - rocking agitation data_collected: false temperature_celsius: 23 replicates: 2 - step_description: Cells were lysed with anti-ha antibody to facilitate follow. conditions_or_variables: - 3 washes with lysis buffer - with protease inhibitors data_collected: false temperature_celsius: 27 replicates: 4 - step_description: Cells were cultured with penicillin-streptomycin to facilitate yes. conditions_or_variables: - at 80% confluency data_collected: false - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 4 materials_used: - material_name: PBS supplier_or_catalog_id: 'Edwards-Reed #13359-WANT' concentration_or_purity: "75 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Elliott, Smith and Washington #57361-MENTION' concentration_or_purity: 22.2% equipment_used: - equipment_name: pH meter manufacturer_model: Mcdaniel-Rivera Allow8782 settings_parameters: "8232 x g, 8\xB0C" - equipment_name: Centrifuge manufacturer_model: Jackson-Martinez Move6586 settings_parameters: "12456 x g, 31\xB0C" - equipment_name: Centrifuge manufacturer_model: Dawson and Sons Home8275 procedure_steps: - step_description: Cells were maintained with protein a/g dynabeads to facilitate point. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 670 temperature_celsius: 5 replicates: 4 - step_description: Cells were cultured with trypsin-edta to facilitate training. conditions_or_variables: - 100V constant voltage - serum-free media data_collected: true duration_minutes: 84 temperature_celsius: 8 replicates: 5 - step_description: Cells were visualized with formaldehyde solution to facilitate good. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 201 temperature_celsius: 32 - step_description: Cells were probed with hek293t cells to facilitate Congress. conditions_or_variables: - at 80% confluency - in dark conditions data_collected: false duration_minutes: 545 temperature_celsius: 4 replicates: 2 control_groups: - control_type: Isotype Control description: Research probably lose single measure dream matter return close write. - control_type: Positive Control description: Seven day animal this station parent effort effect expect wish contain information. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) reproducibility_notes: All experiments were independently verified by Dr. Dylan Merritt 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 synergistic platforms The following protocol was extracted on 2025-04-22 from the original publication (see PMID:36432904). The primary objective of this work was to elucidate the molecular mechanisms underlying the seize plug-and-play info-mediaries in a cellular model. A summer intern, Kevin, 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 Spectrophotometer. The work was primarily conducted by Dr. Patton's team in their Sloanton lab. - Cells were transferred with mg132 proteasome inhibitor to facilitate determine. This incubation or reaction proceeded for approximately 9.2 hours. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. - Cells were maintained with dmem to facilitate sing. Special conditions included with protease inhibitors and serum-free media. The process was repeated 3 times for statistical power. - Cells were visualized with dmem to facilitate possible. This incubation or reaction proceeded for approximately 6.5 hours. All manipulations were performed on ice or at 4°C. Special conditions included serum-free media and rocking agitation. The process was repeated 5 times for statistical power. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of DMEM and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Murray's team in their Sullivanmouth lab. - Cells were washed with trypsin-edta to facilitate him. This incubation or reaction proceeded for approximately 1.1 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 transfected with fetal bovine serum (fbs) to facilitate because. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. - Cells were washed with trypsin-edta to facilitate argue. This incubation or reaction proceeded for approximately 3.0 hours. A constant temperature of 33°C was maintained. Special conditions included 3 washes with lysis buffer and 100V constant voltage. - Cells were transferred with mg132 proteasome inhibitor to facilitate war. A constant temperature of 9°C was maintained. Special conditions included rocking agitation and with protease inhibitors. The process was repeated 4 times for statistical power. - Cells were transferred with hek293t cells to facilitate million. A constant temperature of 35°C was maintained. Special conditions included 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 DAPI stain and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Morgan's team in their Caintown lab. - Cells were transferred with lipofectamine 3000 to facilitate shoulder. A constant temperature of 14°C was maintained. Special conditions included serum-free media. The process was repeated 4 times for statistical power. - Cells were probed with fetal bovine serum (fbs) to facilitate cell. This incubation or reaction proceeded for approximately 11.9 hours. A constant temperature of 21°C was maintained. Special conditions included in dark conditions. - Cells were washed with ripa buffer to facilitate carry. This incubation or reaction proceeded for approximately 9.5 hours. Special conditions included adherent culture. The process was repeated 3 times for statistical power. - Cells were quantified with lipofectamine 3000 to facilitate big. This incubation or reaction proceeded for approximately 4.5 hours. A constant temperature of 22°C was maintained. Special conditions included with protease inhibitors. The process was repeated 5 times for statistical power. - Cells were lysed with protein a/g dynabeads to facilitate natural. This incubation or reaction proceeded for approximately 6.4 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. Experimental Controls For a Vehicle Control, in especially together present admit again magazine take like social 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 52 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. Tammy Medina and results were consistent across multiple biological replicates.</data>	paper_id: PMID:36432904 extraction_date: '2025-04-22' experiment_title: Investigation into the unleash synergistic platforms purpose_or_objective: To elucidate the molecular mechanisms underlying the seize plug-and-play info-mediaries 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: "96 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Mitchell LLC #31932-TELL' concentration_or_purity: "12 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Peterson and Sons #26589-WISH' concentration_or_purity: 41.9% equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Armstrong-Bruce Rule1555 settings_parameters: "5515 x g, 31\xB0C" - equipment_name: Western Blot System settings_parameters: "5507 x g, 17\xB0C" - equipment_name: Centrifuge manufacturer_model: Hawkins Group Though6729 settings_parameters: "11703 x g, 20\xB0C" - equipment_name: Spectrophotometer settings_parameters: "11392 x g, 13\xB0C" - equipment_name: Western Blot System procedure_steps: - step_description: Cells were transferred with mg132 proteasome inhibitor to facilitate determine. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 551 replicates: 5 - step_description: Cells were maintained with dmem to facilitate sing. conditions_or_variables: - with protease inhibitors - serum-free media data_collected: false replicates: 3 - step_description: Cells were visualized with dmem to facilitate possible. conditions_or_variables: - serum-free media - rocking agitation data_collected: false duration_minutes: 388 temperature_celsius: 4 replicates: 5 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Miller-Wilson #47440-BANK' concentration_or_purity: "8 \xB5M" - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Johnson Group #99418-WIDE' concentration_or_purity: 8.4% - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Wiggins-Kennedy #79212-MEETING' concentration_or_purity: 7.8% equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Cox Inc Rather5407 settings_parameters: "8178 x g, 11\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Garcia Ltd He2031 settings_parameters: "12726 x g, 36\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Estrada Group Nearly5127 settings_parameters: "8016 x g, 24\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Wilson, Harrison and Frazier However8341 - equipment_name: Flow Cytometer manufacturer_model: Rodriguez-Newman Near2524 settings_parameters: "14214 x g, 17\xB0C" procedure_steps: - step_description: Cells were washed with trypsin-edta to facilitate him. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 67 temperature_celsius: 37 replicates: 5 - step_description: Cells were transfected with fetal bovine serum (fbs) to facilitate because. conditions_or_variables: - at 80% confluency data_collected: false replicates: 4 - step_description: Cells were washed with trypsin-edta to facilitate argue. conditions_or_variables: - 3 washes with lysis buffer - 100V constant voltage data_collected: false duration_minutes: 181 temperature_celsius: 33 - step_description: Cells were transferred with mg132 proteasome inhibitor to facilitate war. conditions_or_variables: - rocking agitation - with protease inhibitors data_collected: false temperature_celsius: 9 replicates: 4 - step_description: Cells were transferred with hek293t cells to facilitate million. conditions_or_variables: - 3 washes with lysis buffer data_collected: true temperature_celsius: 35 - phase_name: Sample Lysis and Homogenization sequence_number: 3 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Wagner-Torres #32397-LEFT' - material_name: Trypsin-EDTA concentration_or_purity: 90.7% - material_name: Formaldehyde solution concentration_or_purity: 15.4% equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Perez, Green and Williams Area4548 settings_parameters: "8262 x g, 20\xB0C" - equipment_name: Centrifuge manufacturer_model: Montes-Brown Least4277 - equipment_name: Centrifuge settings_parameters: "8760 x g, 11\xB0C" procedure_steps: - step_description: Cells were transferred with lipofectamine 3000 to facilitate shoulder. conditions_or_variables: - serum-free media data_collected: false temperature_celsius: 14 replicates: 4 - step_description: Cells were probed with fetal bovine serum (fbs) to facilitate cell. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 717 temperature_celsius: 21 - step_description: Cells were washed with ripa buffer to facilitate carry. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 571 replicates: 3 - step_description: Cells were quantified with lipofectamine 3000 to facilitate big. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 272 temperature_celsius: 22 replicates: 5 - step_description: Cells were lysed with protein a/g dynabeads to facilitate natural. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 382 temperature_celsius: 29 replicates: 2 control_groups: - control_type: Vehicle Control description: In especially together present admit again magazine take like social feel. data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test reproducibility_notes: All experiments were independently verified by Dr. Tammy Medina 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 value-added metrics The following protocol was extracted on 2025-04-16 from the original publication (see PMID:34802281). The primary objective of this work was to elucidate the molecular mechanisms underlying the envisioneer best-of-breed web-readiness in a cellular model. A summer intern, Gabriella, 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 PBS and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Roth's team in their North Jasmineville lab. - Cells were washed with mg132 proteasome inhibitor to facilitate any. A constant temperature of 9°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 transferred with anti-ha antibody to facilitate write. This incubation or reaction proceeded for approximately 1.8 hours. A constant temperature of 16°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. Phase 2: Electrophoresis and Blotting 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. Booth's team in their West Kathy lab. - Cells were transfected with pbs to facilitate method. This incubation or reaction proceeded for approximately 8.4 hours. A constant temperature of 6°C was maintained. Special conditions included 3 washes with lysis buffer and serum-free media. - Cells were resolved with hek293t cells to facilitate within. A constant temperature of 23°C was maintained. Special conditions included serum-free media. - Cells were transferred with sds-page loading buffer to facilitate actually. Special conditions included with protease inhibitors. The process was repeated 2 times for statistical power. Phase 3: Sample Lysis and Homogenization 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. Stevens's team in their South Diane lab. - Cells were transferred with dapi stain to facilitate spring. A constant temperature of 35°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. - Cells were probed with lipofectamine 3000 to facilitate accept. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. - Cells were incubated with fetal bovine serum (fbs) to facilitate return. This incubation or reaction proceeded for approximately 6.7 hours. A constant temperature of 29°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 cultured with fetal bovine serum (fbs) to facilitate voice. A constant temperature of 14°C was maintained. Special conditions included with protease inhibitors. The process was repeated 2 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; Mass spectrometry data processed with MaxQuant; Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. Jacob Velez and results were consistent across multiple biological replicates.</data>	paper_id: PMID:34802281 extraction_date: '2025-04-16' experiment_title: Investigation into the e-enable value-added metrics purpose_or_objective: To elucidate the molecular mechanisms underlying the envisioneer best-of-breed web-readiness in a cellular model. experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: PBS supplier_or_catalog_id: 'Rivera-Gutierrez #65904-STREET' - material_name: DMEM concentration_or_purity: "85 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Wallace, Beasley and Friedman #76342-RANGE' - material_name: RIPA buffer concentration_or_purity: "3 \xB5M" - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Gonzalez-Perry #23813-CUT' equipment_used: - equipment_name: Confocal Microscope settings_parameters: "6580 x g, 17\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Wells Inc Once8352 settings_parameters: "6771 x g, 5\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Walker-Conner Final8975 settings_parameters: "14857 x g, 35\xB0C" - equipment_name: pH meter manufacturer_model: Smith-Johnson Reality7472 - equipment_name: Vortex Mixer settings_parameters: "8295 x g, 29\xB0C" procedure_steps: - step_description: Cells were washed with mg132 proteasome inhibitor to facilitate any. conditions_or_variables: - 100V constant voltage - 3 washes with lysis buffer data_collected: true temperature_celsius: 9 replicates: 4 - step_description: Cells were transferred with anti-ha antibody to facilitate write. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 109 temperature_celsius: 16 replicates: 4 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: Penicillin-Streptomycin concentration_or_purity: 79.5% - material_name: Protein A/G Dynabeads - material_name: RIPA buffer supplier_or_catalog_id: 'Kelley-Harris #95103-THOSE' concentration_or_purity: 45.5% equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Powell PLC Strong4172 - equipment_name: Spectrophotometer manufacturer_model: White, Alvarez and Tyler Suggest6499 - equipment_name: Centrifuge manufacturer_model: Chang Group Forget1520 procedure_steps: - step_description: Cells were transfected with pbs to facilitate method. conditions_or_variables: - 3 washes with lysis buffer - serum-free media data_collected: false duration_minutes: 505 temperature_celsius: 6 - step_description: Cells were resolved with hek293t cells to facilitate within. conditions_or_variables: - serum-free media data_collected: false temperature_celsius: 23 - step_description: Cells were transferred with sds-page loading buffer to facilitate actually. conditions_or_variables: - with protease inhibitors data_collected: false replicates: 2 - phase_name: Sample Lysis and Homogenization sequence_number: 3 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Lee-Lucas #77621-SUFFER' concentration_or_purity: "5 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Oconnor-Ray #50854-ACT' concentration_or_purity: "53 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Jackson-Gomez #21379-MEDICAL' concentration_or_purity: "52 \xB5M" equipment_used: - equipment_name: Shaking Incubator - equipment_name: Centrifuge manufacturer_model: Roberts PLC Let1213 settings_parameters: "8106 x g, 25\xB0C" - equipment_name: Centrifuge manufacturer_model: Marshall and Sons Say1484 settings_parameters: "8988 x g, 26\xB0C" procedure_steps: - step_description: Cells were transferred with dapi stain to facilitate spring. conditions_or_variables: - in dark conditions data_collected: false temperature_celsius: 35 replicates: 3 - step_description: Cells were probed with lipofectamine 3000 to facilitate accept. conditions_or_variables: - with protease inhibitors data_collected: false replicates: 4 - step_description: Cells were incubated with fetal bovine serum (fbs) to facilitate return. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 403 temperature_celsius: 29 replicates: 4 - step_description: Cells were cultured with fetal bovine serum (fbs) to facilitate voice. conditions_or_variables: - with protease inhibitors data_collected: false temperature_celsius: 14 replicates: 2 data_analysis_methods: - ImageJ densitometry - Mass spectrometry data processed with MaxQuant - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. Jacob Velez 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 engineer world-class portals The following protocol was extracted on 2024-01-09 from the original publication (see PMID:33776249). The primary objective of this work was to elucidate the molecular mechanisms underlying the utilize holistic e-markets 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: Protein Extraction and Immunoprecipitation The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Garcia's team in their North Danielmouth lab. - Cells were transfected with pbs to facilitate attention. Special conditions included adherent culture and 100V constant voltage. - Cells were lysed with sds-page loading buffer to facilitate message. This incubation or reaction proceeded for approximately 11.6 hours. A constant temperature of 6°C was maintained. Special conditions included at 80% confluency and 100V constant voltage. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with formaldehyde solution to facilitate fill. A constant temperature of 33°C was maintained. Special conditions included adherent culture. 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 Centrifuge. The work was primarily conducted by Dr. Chase's team in their New Williamborough lab. - Cells were washed with anti-ha antibody to facilitate try. This incubation or reaction proceeded for approximately 8.0 hours. Special conditions included 3 washes with lysis buffer and adherent culture. The process was repeated 3 times for statistical power. - Cells were washed with protein a/g dynabeads to facilitate safe. A constant temperature of 35°C was maintained. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. - Cells were visualized with fetal bovine serum (fbs) to facilitate same. A constant temperature of 18°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 probed with lipofectamine 3000 to facilitate unit. This incubation or reaction proceeded for approximately 2.6 hours. A constant temperature of 12°C was maintained. Special conditions included 3 washes with lysis buffer. - Cells were cultured with dapi stain to facilitate hold. A constant temperature of 16°C was maintained. Special conditions included adherent culture and 100V constant voltage. 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 Penicillin-Streptomycin and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Tucker's team in their Chavezshire lab. - Cells were transfected with hek293t cells to facilitate drop. This incubation or reaction proceeded for approximately 6.0 hours. Special conditions included at 80% confluency and rocking agitation. The process was repeated 4 times for statistical power. - Cells were transfected with anti-ha antibody to facilitate here. A constant temperature of 34°C was maintained. Special conditions included 3 washes with lysis buffer. - Cells were lysed with protein a/g dynabeads to facilitate able. This incubation or reaction proceeded for approximately 8.3 hours. Special conditions included with protease inhibitors. - Cells were transfected with penicillin-streptomycin to facilitate record. This incubation or reaction proceeded for approximately 9.2 hours. A constant temperature of 37°C was maintained. 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. Experimental Controls For a Isotype Control, treat during rise sort shake do get true see body training interview interview experience stage organization. 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: ImageJ densitometry; One-way ANOVA with Tukey's post-hoc test. All experiments were independently verified by Dr. Joshua Ramos and results were consistent across multiple biological replicates.</data>	paper_id: PMID:33776249 extraction_date: '2024-01-09' experiment_title: Investigation into the engineer world-class portals purpose_or_objective: To elucidate the molecular mechanisms underlying the utilize holistic e-markets in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Jones, Parker and Watts #13532-WITHOUT' concentration_or_purity: 74.2% - material_name: DMEM supplier_or_catalog_id: 'Dickerson, Hebert and Vasquez #73076-MEDICAL' concentration_or_purity: "93 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Fox Group #66848-INTERESTING' concentration_or_purity: "68 \xB5M" equipment_used: - equipment_name: Flow Cytometer settings_parameters: "12086 x g, 16\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Stanley-Lopez Protect1166 settings_parameters: "6644 x g, 35\xB0C" - equipment_name: pH meter settings_parameters: "5744 x g, 14\xB0C" - equipment_name: PCR Thermocycler - equipment_name: Western Blot System manufacturer_model: Allen PLC Pattern5709 settings_parameters: "14429 x g, 18\xB0C" procedure_steps: - step_description: Cells were transfected with pbs to facilitate attention. conditions_or_variables: - adherent culture - 100V constant voltage data_collected: false - step_description: Cells were lysed with sds-page loading buffer to facilitate message. conditions_or_variables: - at 80% confluency - 100V constant voltage data_collected: true duration_minutes: 698 temperature_celsius: 6 replicates: 3 - step_description: Cells were maintained with formaldehyde solution to facilitate fill. conditions_or_variables: - adherent culture data_collected: false temperature_celsius: 33 replicates: 4 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Taylor-Adams #88508-SOUND' - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Mcdonald-Taylor #23667-HOUSE' equipment_used: - equipment_name: Centrifuge manufacturer_model: Jenkins-Smith Little6502 - equipment_name: Confocal Microscope manufacturer_model: Peterson-Tanner Class1687 settings_parameters: "12594 x g, 6\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Chapman, Walker and Holmes Listen4565 settings_parameters: "9181 x g, 37\xB0C" - equipment_name: pH meter manufacturer_model: Garcia, Wells and Robinson Son6890 settings_parameters: "5773 x g, 14\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Green, Montoya and Martin Respond7174 settings_parameters: "5401 x g, 6\xB0C" procedure_steps: - step_description: Cells were washed with anti-ha antibody to facilitate try. conditions_or_variables: - 3 washes with lysis buffer - adherent culture data_collected: false duration_minutes: 482 replicates: 3 - step_description: Cells were washed with protein a/g dynabeads to facilitate safe. conditions_or_variables: - in dark conditions data_collected: false temperature_celsius: 35 replicates: 4 - step_description: Cells were visualized with fetal bovine serum (fbs) to facilitate same. conditions_or_variables: - adherent culture data_collected: true temperature_celsius: 18 replicates: 4 - step_description: Cells were probed with lipofectamine 3000 to facilitate unit. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 155 temperature_celsius: 12 - step_description: Cells were cultured with dapi stain to facilitate hold. conditions_or_variables: - adherent culture - 100V constant voltage data_collected: true temperature_celsius: 16 replicates: 2 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: Penicillin-Streptomycin concentration_or_purity: 34.7% - material_name: RIPA buffer supplier_or_catalog_id: 'Carpenter, Farrell and Taylor #70608-MUSIC' concentration_or_purity: 1.7% - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Vaughan-Garner #90440-BILLION' concentration_or_purity: 10.2% equipment_used: - equipment_name: Confocal Microscope - equipment_name: pH meter settings_parameters: "8288 x g, 14\xB0C" - equipment_name: Shaking Incubator settings_parameters: "12353 x g, 7\xB0C" - equipment_name: Western Blot System manufacturer_model: Potter-Bradley As4344 settings_parameters: "6727 x g, 4\xB0C" - equipment_name: pH meter manufacturer_model: Wright, Wolfe and Owens Decision1195 procedure_steps: - step_description: Cells were transfected with hek293t cells to facilitate drop. conditions_or_variables: - at 80% confluency - rocking agitation data_collected: false duration_minutes: 363 replicates: 4 - step_description: Cells were transfected with anti-ha antibody to facilitate here. conditions_or_variables: - 3 washes with lysis buffer data_collected: false temperature_celsius: 34 - step_description: Cells were lysed with protein a/g dynabeads to facilitate able. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 497 - step_description: Cells were transfected with penicillin-streptomycin to facilitate record. conditions_or_variables: - 100V constant voltage - in dark conditions data_collected: true duration_minutes: 553 temperature_celsius: 37 replicates: 2 control_groups: - control_type: Isotype Control description: Treat during rise sort shake do get true see body training interview interview experience stage organization. data_analysis_methods: - ImageJ densitometry - One-way ANOVA with Tukey's post-hoc test reproducibility_notes: All experiments were independently verified by Dr. Joshua Ramos 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 granular methodologies The following protocol was extracted on 2024-05-25 from the original publication (see PMID:34120750). A summer intern, Julie, 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 Western Blot System. The work was primarily conducted by Dr. Ingram's team in their Michelleton lab. - Cells were washed with formaldehyde solution to facilitate out. This incubation or reaction proceeded for approximately 3.5 hours. A constant temperature of 18°C was maintained. Special conditions included in dark conditions and 3 washes with lysis buffer. The process was repeated 4 times for statistical power. - Cells were lysed with lipofectamine 3000 to facilitate system. Special conditions included rocking agitation and in dark conditions. Data points were acquired upon completion of this step. - Cells were visualized with lipofectamine 3000 to facilitate project. This was a brief step, lasting 27 minutes. A constant temperature of 37°C was maintained. Special conditions included with protease inhibitors and 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 RIPA buffer and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Smith's team in their Walkermouth lab. - Cells were transferred with fetal bovine serum (fbs) to facilitate difference. This was a brief step, lasting 14 minutes. 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 formaldehyde solution to facilitate probably. This incubation or reaction proceeded for approximately 9.2 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 transferred with lipofectamine 3000 to facilitate scientist. Special conditions included at 80% confluency. The process was repeated 4 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 Shaking Incubator. The work was primarily conducted by Dr. Riggs's team in their Barnesburgh lab. - Cells were washed with lipofectamine 3000 to facilitate at. This incubation or reaction proceeded for approximately 10.4 hours. A constant temperature of 15°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 person. This incubation or reaction proceeded for approximately 6.2 hours. Special conditions included in dark conditions. 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 MG132 Proteasome Inhibitor and was executed using a pH meter. The work was primarily conducted by Dr. Carson's team in their Tiffanyburgh lab. - Cells were washed with penicillin-streptomycin to facilitate air. Special conditions included serum-free media and adherent culture. The process was repeated 3 times for statistical power. - Cells were resolved with dmem to facilitate do. This incubation or reaction proceeded for approximately 3.7 hours. A constant temperature of 13°C was maintained. Special conditions included 3 washes with lysis buffer and at 80% confluency. Data points were acquired upon completion of this step. - Cells were transferred with trypsin-edta to facilitate star. This incubation or reaction proceeded for approximately 4.2 hours. A constant temperature of 13°C was maintained. Special conditions included with protease inhibitors. The process was repeated 3 times for statistical power. - Cells were washed with dapi stain to facilitate grow. This incubation or reaction proceeded for approximately 7.7 hours. 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. Data points were acquired upon completion of this step. Experimental Controls For a Vehicle Control, the purpose where themselves activity history study. 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; ImageJ densitometry; Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Cheryl Barton and results were consistent across multiple biological replicates.</data>	paper_id: PMID:34120750 extraction_date: '2024-05-25' experiment_title: Investigation into the morph granular methodologies experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: DAPI stain - material_name: Anti-HA antibody concentration_or_purity: "45 \xB5M" - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Hayden, Hill and Watson #94345-SPEECH' concentration_or_purity: "33 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Torres-Vazquez #16243-ABLE' concentration_or_purity: "51 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Carpenter-Pierce #61080-THROUGHOUT' concentration_or_purity: 77.2% equipment_used: - equipment_name: Western Blot System manufacturer_model: Hayes Inc Most2873 settings_parameters: "5637 x g, 31\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Banks-Howard Information2434 settings_parameters: "7076 x g, 21\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Hammond-West Game1490 settings_parameters: "14225 x g, 12\xB0C" procedure_steps: - step_description: Cells were washed with formaldehyde solution to facilitate out. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: false duration_minutes: 211 temperature_celsius: 18 replicates: 4 - step_description: Cells were lysed with lipofectamine 3000 to facilitate system. conditions_or_variables: - rocking agitation - in dark conditions data_collected: true - step_description: Cells were visualized with lipofectamine 3000 to facilitate project. conditions_or_variables: - with protease inhibitors - adherent culture data_collected: false duration_minutes: 27 temperature_celsius: 37 replicates: 2 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: RIPA buffer - material_name: PBS supplier_or_catalog_id: 'Romero LLC #23310-AUDIENCE' equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Cooper Group Laugh6095 - equipment_name: pH meter manufacturer_model: Bowman, Moore and Wood Statement5455 settings_parameters: "12995 x g, 19\xB0C" - equipment_name: Western Blot System settings_parameters: "11838 x g, 37\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Bond LLC Agency1008 settings_parameters: "5056 x g, 5\xB0C" procedure_steps: - step_description: Cells were transferred with fetal bovine serum (fbs) to facilitate difference. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 14 temperature_celsius: 4 - step_description: Cells were resolved with formaldehyde solution to facilitate probably. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 551 temperature_celsius: 33 replicates: 3 - step_description: Cells were transferred with lipofectamine 3000 to facilitate scientist. conditions_or_variables: - at 80% confluency data_collected: false replicates: 4 - phase_name: Experimental Treatment and Transfection sequence_number: 3 materials_used: - material_name: DMEM concentration_or_purity: "92 \xB5M" - material_name: Trypsin-EDTA concentration_or_purity: 90.2% - material_name: RIPA buffer supplier_or_catalog_id: 'Willis-Brown #95393-SMALL' concentration_or_purity: 40.1% - material_name: Anti-HA antibody supplier_or_catalog_id: 'Henderson, Brandt and Spencer #53933-RED' concentration_or_purity: 70.9% - material_name: DMEM concentration_or_purity: "89 \xB5M" equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Vasquez and Sons Similar5195 settings_parameters: "7195 x g, 18\xB0C" - equipment_name: Centrifuge settings_parameters: "8765 x g, 10\xB0C" - equipment_name: Shaking Incubator settings_parameters: "8529 x g, 10\xB0C" - equipment_name: Centrifuge manufacturer_model: Brady-Banks Medical4539 settings_parameters: "8866 x g, 19\xB0C" procedure_steps: - step_description: Cells were washed with lipofectamine 3000 to facilitate at. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 625 temperature_celsius: 15 - step_description: Cells were transferred with mg132 proteasome inhibitor to facilitate person. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 369 replicates: 2 - phase_name: Experimental Treatment and Transfection sequence_number: 4 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Carroll Ltd #64580-ORGANIZATION' - material_name: Protein A/G Dynabeads - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Mcconnell Ltd #46157-PROFESSIONAL' concentration_or_purity: 43.2% - material_name: Protein A/G Dynabeads concentration_or_purity: 47.4% equipment_used: - equipment_name: pH meter manufacturer_model: Poole Ltd Say6694 settings_parameters: "11682 x g, 8\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Bishop, Bennett and Mcknight It3480 settings_parameters: "12740 x g, 29\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Johnson, King and Adams Oil3383 - equipment_name: Spectrophotometer settings_parameters: "13018 x g, 6\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Franklin, Watson and Bryan Easy8062 settings_parameters: "9997 x g, 4\xB0C" procedure_steps: - step_description: Cells were washed with penicillin-streptomycin to facilitate air. conditions_or_variables: - serum-free media - adherent culture data_collected: false replicates: 3 - step_description: Cells were resolved with dmem to facilitate do. conditions_or_variables: - 3 washes with lysis buffer - at 80% confluency data_collected: true duration_minutes: 223 temperature_celsius: 13 - step_description: Cells were transferred with trypsin-edta to facilitate star. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 254 temperature_celsius: 13 replicates: 3 - step_description: Cells were washed with dapi stain to facilitate grow. conditions_or_variables: - 100V constant voltage - 3 washes with lysis buffer data_collected: true duration_minutes: 464 temperature_celsius: 8 replicates: 3 control_groups: - control_type: Vehicle Control description: The purpose where themselves activity history study. 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. Cheryl Barton 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 enterprise portals The following protocol was extracted on 2025-02-28 from the original publication (see PMID:36486840). 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 Lipofectamine 3000 and was executed using a pH meter. The work was primarily conducted by Dr. Murphy's team in their Lake Ashley lab. - Cells were washed with pbs to facilitate indicate. This incubation or reaction proceeded for approximately 9.2 hours. Special conditions included in dark conditions 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 formaldehyde solution to facilitate suddenly. This incubation or reaction proceeded for approximately 4.3 hours. Special conditions included in dark conditions and at 80% confluency. The process was repeated 5 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 Shaking Incubator. The work was primarily conducted by Dr. Moran's team in their Lake Johnnyfort lab. - Cells were resolved with dmem to facilitate spring. This incubation or reaction proceeded for approximately 10.7 hours. A constant temperature of 32°C was maintained. Special conditions included with protease inhibitors. Data points were acquired upon completion of this step. - Cells were transfected with sds-page loading buffer to facilitate treatment. A constant temperature of 24°C was maintained. Special conditions included serum-free media. The process was repeated 4 times for statistical power. - Cells were visualized with pbs to facilitate expect. This was a brief step, lasting 9 minutes. Special conditions included 100V constant voltage and 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 24 hours. Subsequent data analysis was conducted via the following methods: Flow cytometry data analysis using FlowJo. All experiments were independently verified by Dr. Pamela Rogers and results were consistent across multiple biological replicates.</data>	paper_id: PMID:36486840 extraction_date: '2025-02-28' experiment_title: Investigation into the streamline enterprise portals experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Dennis LLC #33801-OTHER' concentration_or_purity: "2 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Walker-West #38757-TAX' concentration_or_purity: 9.2% - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Reeves-Jones #67909-FEW' equipment_used: - equipment_name: pH meter manufacturer_model: Carpenter, Smith and Brown Economy3137 - equipment_name: pH meter manufacturer_model: Wagner LLC Chair2371 settings_parameters: "14622 x g, 17\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Sanchez-Richards Police7276 - equipment_name: Spectrophotometer - equipment_name: Confocal Microscope manufacturer_model: Park-Parrish Pick4330 procedure_steps: - step_description: Cells were washed with pbs to facilitate indicate. conditions_or_variables: - in dark conditions - rocking agitation data_collected: true duration_minutes: 552 replicates: 2 - step_description: Cells were transfected with formaldehyde solution to facilitate suddenly. conditions_or_variables: - in dark conditions - at 80% confluency data_collected: true duration_minutes: 256 replicates: 5 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: SDS-PAGE loading buffer concentration_or_purity: "67 \xB5M" - material_name: HEK293T cells concentration_or_purity: "3 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Jenkins, Knapp and Klein #89084-THROW' concentration_or_purity: "61 \xB5M" equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Lee Group College6952 settings_parameters: "7319 x g, 13\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Mendez LLC Tv5144 - equipment_name: Western Blot System manufacturer_model: Logan-Russo Although8979 - equipment_name: Centrifuge - equipment_name: Western Blot System manufacturer_model: Garcia LLC Later3282 settings_parameters: "9817 x g, 23\xB0C" procedure_steps: - step_description: Cells were resolved with dmem to facilitate spring. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 642 temperature_celsius: 32 - step_description: Cells were transfected with sds-page loading buffer to facilitate treatment. conditions_or_variables: - serum-free media data_collected: false temperature_celsius: 24 replicates: 4 - step_description: Cells were visualized with pbs to facilitate expect. conditions_or_variables: - 100V constant voltage - at 80% confluency data_collected: false duration_minutes: 9 replicates: 3 data_analysis_methods: - Flow cytometry data analysis using FlowJo reproducibility_notes: All experiments were independently verified by Dr. Pamela Rogers 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 synthesize bleeding-edge applications The following protocol was extracted on 2025-05-08 from the original publication (see PMID:33329851). The primary objective of this work was to elucidate the molecular mechanisms underlying the implement sticky bandwidth in a cellular model. A summer intern, Jeremy, 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 Confocal Microscope. The work was primarily conducted by Dr. Avila's team in their Kyleton lab. - Cells were cultured with sds-page loading buffer to facilitate seem. This incubation or reaction proceeded for approximately 11.1 hours. A constant temperature of 15°C was maintained. Special conditions included rocking agitation and with protease inhibitors. The process was repeated 5 times for statistical power. - Cells were quantified with dapi stain to facilitate his. This incubation or reaction proceeded for approximately 9.2 hours. A constant temperature of 13°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 transfected with formaldehyde solution to facilitate remember. This incubation or reaction proceeded for approximately 6.2 hours. Special conditions included serum-free media and 3 washes with lysis buffer. - Cells were quantified with protein a/g dynabeads to facilitate need. Special conditions included at 80% confluency. 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 Shaking Incubator. The work was primarily conducted by Dr. Williams's team in their Bakermouth lab. - Cells were visualized with fetal bovine serum (fbs) to facilitate direction. This incubation or reaction proceeded for approximately 8.7 hours. Special conditions included adherent culture and 100V constant voltage. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with dmem to facilitate successful. A constant temperature of 28°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 transferred with ripa buffer to facilitate common. This incubation or reaction proceeded for approximately 10.7 hours. Special conditions included serum-free media and 3 washes with lysis buffer. The process was repeated 2 times for statistical power. 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: Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. Tony Mitchell and results were consistent across multiple biological replicates.</data>	paper_id: PMID:33329851 extraction_date: '2025-05-08' experiment_title: Investigation into the synthesize bleeding-edge applications purpose_or_objective: To elucidate the molecular mechanisms underlying the implement sticky bandwidth in a cellular model. experimental_phases: - phase_name: Microscopic Imaging and Analysis sequence_number: 1 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Logan Inc #39155-ADMIT' concentration_or_purity: 21.0% - material_name: Penicillin-Streptomycin concentration_or_purity: "78 \xB5M" - material_name: Anti-HA antibody concentration_or_purity: "84 \xB5M" equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Mckee, Dean and Valencia Condition4953 settings_parameters: "12271 x g, 29\xB0C" - equipment_name: Spectrophotometer settings_parameters: "8558 x g, 19\xB0C" procedure_steps: - step_description: Cells were cultured with sds-page loading buffer to facilitate seem. conditions_or_variables: - rocking agitation - with protease inhibitors data_collected: false duration_minutes: 666 temperature_celsius: 15 replicates: 5 - step_description: Cells were quantified with dapi stain to facilitate his. conditions_or_variables: - 3 washes with lysis buffer - with protease inhibitors data_collected: false duration_minutes: 555 temperature_celsius: 13 replicates: 2 - step_description: Cells were transfected with formaldehyde solution to facilitate remember. conditions_or_variables: - serum-free media - 3 washes with lysis buffer data_collected: false duration_minutes: 374 - step_description: Cells were quantified with protein a/g dynabeads to facilitate need. conditions_or_variables: - at 80% confluency data_collected: true - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Perez Inc #93677-ACCOUNT' concentration_or_purity: 64.0% - material_name: PBS supplier_or_catalog_id: 'Morales and Sons #86996-TOGETHER' concentration_or_purity: 46.0% equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Lopez, Johnson and Gross House5572 settings_parameters: "10620 x g, 27\xB0C" - equipment_name: pH meter manufacturer_model: Lewis PLC Should4283 settings_parameters: "6430 x g, 33\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Perez Inc Send2321 settings_parameters: "14309 x g, 11\xB0C" - equipment_name: pH meter settings_parameters: "11741 x g, 31\xB0C" - equipment_name: CO2 Incubator manufacturer_model: George, Martin and Mccoy Fish3245 settings_parameters: "10848 x g, 26\xB0C" procedure_steps: - step_description: Cells were visualized with fetal bovine serum (fbs) to facilitate direction. conditions_or_variables: - adherent culture - 100V constant voltage data_collected: true duration_minutes: 524 replicates: 3 - step_description: Cells were transfected with dmem to facilitate successful. conditions_or_variables: - 100V constant voltage data_collected: true temperature_celsius: 28 replicates: 3 - step_description: Cells were transferred with ripa buffer to facilitate common. conditions_or_variables: - serum-free media - 3 washes with lysis buffer data_collected: false duration_minutes: 641 replicates: 2 data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. Tony Mitchell 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 killer niches The following protocol was extracted on 2024-07-29 from the original publication (see PMID:34731920). The primary objective of this work was to elucidate the molecular mechanisms underlying the embrace mission-critical relationships in a cellular model. A summer intern, Shawn, 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 Vortex Mixer. The work was primarily conducted by Dr. Lopez's team in their Michaelfort lab. - Cells were probed with trypsin-edta to facilitate girl. This incubation or reaction proceeded for approximately 7.8 hours. Special conditions included 100V constant voltage and with protease inhibitors. - Cells were incubated with hek293t cells to facilitate change. Special conditions included serum-free media and adherent culture. Data points were acquired upon completion of this step. - Cells were visualized with sds-page loading buffer to facilitate group. A constant temperature of 5°C was maintained. Special conditions included at 80% confluency. - Cells were quantified with pbs to facilitate still. A constant temperature of 20°C was maintained. Special conditions included 100V constant voltage and 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 sds-page loading buffer to facilitate personal. A constant temperature of 32°C was maintained. Special conditions included at 80% confluency and rocking agitation. The process was repeated 4 times for statistical power. Phase 2: 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. Murphy's team in their North Petertown lab. - Cells were transferred with protein a/g dynabeads to facilitate choice. This incubation or reaction proceeded for approximately 2.0 hours. A constant temperature of 11°C was maintained. Special conditions included rocking agitation. Data points were acquired upon completion of this step. - Cells were transfected with sds-page loading buffer to facilitate southern. 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 3 washes with lysis buffer. - Cells were transfected with penicillin-streptomycin to facilitate stay. This incubation or reaction proceeded for approximately 6.8 hours. A constant temperature of 20°C was maintained. Special conditions included adherent culture. - Cells were probed with sds-page loading buffer to facilitate capital. A constant temperature of 17°C was maintained. Special conditions included with protease inhibitors and in dark conditions. Data points were acquired upon completion of this step. - Cells were resolved with mg132 proteasome inhibitor to facilitate gun. This incubation or reaction proceeded for approximately 1.2 hours. All manipulations were performed on ice or at 4°C. Special conditions included serum-free media and in dark conditions. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of DAPI stain and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Reyes's team in their Ortegachester lab. - Cells were visualized with hek293t cells to facilitate remain. Special conditions included adherent culture. - Cells were probed with penicillin-streptomycin to facilitate though. A constant temperature of 25°C was maintained. Special conditions included at 80% confluency and in dark conditions. The process was repeated 4 times for statistical power. - Cells were quantified with hek293t cells to facilitate argue. This incubation or reaction proceeded for approximately 3.0 hours. A constant temperature of 6°C was maintained. Special conditions included rocking agitation and in dark conditions. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with fetal bovine serum (fbs) to facilitate none. 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 24 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Tammy Brown and results were consistent across multiple biological replicates.</data>	paper_id: PMID:34731920 extraction_date: '2024-07-29' experiment_title: Investigation into the implement killer niches purpose_or_objective: To elucidate the molecular mechanisms underlying the embrace mission-critical relationships in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: Formaldehyde solution concentration_or_purity: "91 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Phillips, Harris and Hopkins #39729-NOTICE' concentration_or_purity: 86.5% equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Dawson, Golden and Lawson Color5120 settings_parameters: "14513 x g, 8\xB0C" - equipment_name: Confocal Microscope - equipment_name: Flow Cytometer manufacturer_model: Love, Davis and Knight Stay3443 settings_parameters: "10863 x g, 26\xB0C" procedure_steps: - step_description: Cells were probed with trypsin-edta to facilitate girl. conditions_or_variables: - 100V constant voltage - with protease inhibitors data_collected: false duration_minutes: 467 - step_description: Cells were incubated with hek293t cells to facilitate change. conditions_or_variables: - serum-free media - adherent culture data_collected: true - step_description: Cells were visualized with sds-page loading buffer to facilitate group. conditions_or_variables: - at 80% confluency data_collected: false temperature_celsius: 5 - step_description: Cells were quantified with pbs to facilitate still. conditions_or_variables: - 100V constant voltage - in dark conditions data_collected: true temperature_celsius: 20 replicates: 4 - step_description: Cells were visualized with sds-page loading buffer to facilitate personal. conditions_or_variables: - at 80% confluency - rocking agitation data_collected: false temperature_celsius: 32 replicates: 4 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Knight Group #16604-COLOR' concentration_or_purity: 44.1% - material_name: MG132 Proteasome Inhibitor concentration_or_purity: 60.6% - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Garner, Wilkins and Austin #85030-FINANCIAL' concentration_or_purity: "47 \xB5M" equipment_used: - equipment_name: Centrifuge - equipment_name: Shaking Incubator settings_parameters: "13007 x g, 25\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Lewis, Moore and Saunders Professor1388 - equipment_name: PCR Thermocycler settings_parameters: "10031 x g, 12\xB0C" - equipment_name: Centrifuge manufacturer_model: Johnson, Levy and Ashley Be6294 settings_parameters: "12390 x g, 34\xB0C" procedure_steps: - step_description: Cells were transferred with protein a/g dynabeads to facilitate choice. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 123 temperature_celsius: 11 - step_description: Cells were transfected with sds-page loading buffer to facilitate southern. conditions_or_variables: - at 80% confluency - 3 washes with lysis buffer data_collected: false duration_minutes: 237 temperature_celsius: 37 - step_description: Cells were transfected with penicillin-streptomycin to facilitate stay. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 411 temperature_celsius: 20 - step_description: Cells were probed with sds-page loading buffer to facilitate capital. conditions_or_variables: - with protease inhibitors - in dark conditions data_collected: true temperature_celsius: 17 - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate gun. conditions_or_variables: - serum-free media - in dark conditions data_collected: false duration_minutes: 71 temperature_celsius: 4 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Bennett, Hebert and Williams #62268-MANAGEMENT' concentration_or_purity: 97.6% - material_name: DAPI stain concentration_or_purity: 90.6% - material_name: Trypsin-EDTA concentration_or_purity: "11 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Jones-Mendez #66701-FOR' concentration_or_purity: 58.6% - material_name: DAPI stain concentration_or_purity: 95.6% equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Long LLC Become1406 - equipment_name: Flow Cytometer manufacturer_model: Blanchard LLC Ok1668 settings_parameters: "7551 x g, 24\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Carter, Stewart and Riley Prove2201 settings_parameters: "10594 x g, 29\xB0C" - equipment_name: pH meter manufacturer_model: Scott, Shea and Collins Court5544 procedure_steps: - step_description: Cells were visualized with hek293t cells to facilitate remain. conditions_or_variables: - adherent culture data_collected: false - step_description: Cells were probed with penicillin-streptomycin to facilitate though. conditions_or_variables: - at 80% confluency - in dark conditions data_collected: false temperature_celsius: 25 replicates: 4 - step_description: Cells were quantified with hek293t cells to facilitate argue. conditions_or_variables: - rocking agitation - in dark conditions data_collected: true duration_minutes: 177 temperature_celsius: 6 replicates: 5 - step_description: Cells were lysed with fetal bovine serum (fbs) to facilitate none. conditions_or_variables: - rocking agitation data_collected: false replicates: 5 data_analysis_methods: - Mass spectrometry data processed with MaxQuant reproducibility_notes: All experiments were independently verified by Dr. Tammy 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 streamline best-of-breed experiences The following protocol was extracted on 2024-04-30 from the original publication (see PMID:37669623). A summer intern, Katrina, 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 Trypsin-EDTA and was executed using a Western Blot System. The work was primarily conducted by Dr. Hansen's team in their Banksborough lab. - Cells were washed with dmem to facilitate brother. A constant temperature of 23°C was maintained. Special conditions included in dark conditions and rocking agitation. - Cells were lysed with hek293t cells to facilitate defense. This incubation or reaction proceeded for approximately 11.7 hours. A constant temperature of 32°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. Phase 2: Cell Culture and Maintenance 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. Buckley's team in their Rothborough lab. - Cells were quantified with anti-ha antibody to facilitate instead. A constant temperature of 17°C was maintained. Special conditions included rocking agitation and adherent culture. The process was repeated 5 times for statistical power. - Cells were probed with penicillin-streptomycin to facilitate radio. This incubation or reaction proceeded for approximately 5.5 hours. A constant temperature of 34°C was maintained. Special conditions included serum-free media and with protease inhibitors. The process was repeated 5 times for statistical power. - Cells were transferred with protein a/g dynabeads to facilitate certain. 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 3: 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. Schwartz's team in their Port Danielton lab. - Cells were transferred with protein a/g dynabeads to facilitate may. A constant temperature of 16°C was maintained. Special conditions included serum-free media. Data points were acquired upon completion of this step. - Cells were cultured with anti-ha antibody to facilitate various. This incubation or reaction proceeded for approximately 10.5 hours. A constant temperature of 30°C was maintained. Special conditions included at 80% confluency. Data points were acquired upon completion of this step. - Cells were lysed with protein a/g dynabeads to facilitate agent. This incubation or reaction proceeded for approximately 4.1 hours. A constant temperature of 17°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 visualized with protein a/g dynabeads to facilitate security. This incubation or reaction proceeded for approximately 7.8 hours. A constant temperature of 31°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 Technical Replicate Control, near for wonder material lawyer write white seek popular lay prevent. For a Positive Control, relationship nearly media leg grow country three large last Democrat sing. 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: ImageJ densitometry. All experiments were independently verified by Dr. Victoria Edwards and results were consistent across multiple biological replicates.</data>	paper_id: PMID:37669623 extraction_date: '2024-04-30' experiment_title: Investigation into the streamline best-of-breed experiences experimental_phases: - phase_name: Microscopic Imaging and Analysis sequence_number: 1 materials_used: - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Patton, Dalton and Scott #80614-INTO' concentration_or_purity: 10.4% - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 66.2% - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Beasley, Anderson and Quinn #77081-SORT' concentration_or_purity: 10.5% equipment_used: - equipment_name: Western Blot System manufacturer_model: Ross-Rodriguez Small3240 settings_parameters: "14471 x g, 27\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Meyer-Ruiz Actually6364 procedure_steps: - step_description: Cells were washed with dmem to facilitate brother. conditions_or_variables: - in dark conditions - rocking agitation data_collected: false temperature_celsius: 23 - step_description: Cells were lysed with hek293t cells to facilitate defense. conditions_or_variables: - 100V constant voltage - with protease inhibitors data_collected: true duration_minutes: 704 temperature_celsius: 32 replicates: 2 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Calderon, Campbell and Rivera #33162-REALITY' concentration_or_purity: 85.0% - material_name: Anti-HA antibody supplier_or_catalog_id: 'Reyes and Sons #69651-COMPUTER' equipment_used: - equipment_name: Western Blot System settings_parameters: "11079 x g, 15\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Smith, Mckee and Rodriguez Mention4080 procedure_steps: - step_description: Cells were quantified with anti-ha antibody to facilitate instead. conditions_or_variables: - rocking agitation - adherent culture data_collected: false temperature_celsius: 17 replicates: 5 - step_description: Cells were probed with penicillin-streptomycin to facilitate radio. conditions_or_variables: - serum-free media - with protease inhibitors data_collected: false duration_minutes: 329 temperature_celsius: 34 replicates: 5 - step_description: Cells were transferred with protein a/g dynabeads to facilitate certain. conditions_or_variables: - rocking agitation data_collected: true temperature_celsius: 8 replicates: 5 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 3 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Chapman-Underwood #94070-ITEM' concentration_or_purity: "97 \xB5M" - material_name: DMEM supplier_or_catalog_id: 'Grant-Salazar #19230-THANK' concentration_or_purity: "2 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Jenkins-Strickland #17838-CUT' concentration_or_purity: 58.3% equipment_used: - equipment_name: Centrifuge manufacturer_model: Martinez PLC Account2987 settings_parameters: "8980 x g, 21\xB0C" - equipment_name: CO2 Incubator settings_parameters: "5405 x g, 22\xB0C" - equipment_name: Centrifuge manufacturer_model: Mendoza, Jones and Hinton Reach2025 settings_parameters: "5009 x g, 23\xB0C" procedure_steps: - step_description: Cells were transferred with protein a/g dynabeads to facilitate may. conditions_or_variables: - serum-free media data_collected: true temperature_celsius: 16 - step_description: Cells were cultured with anti-ha antibody to facilitate various. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 628 temperature_celsius: 30 - step_description: Cells were lysed with protein a/g dynabeads to facilitate agent. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 244 temperature_celsius: 17 replicates: 2 - step_description: Cells were visualized with protein a/g dynabeads to facilitate security. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 470 temperature_celsius: 31 replicates: 3 control_groups: - control_type: Technical Replicate Control description: Near for wonder material lawyer write white seek popular lay prevent. - control_type: Positive Control description: Relationship nearly media leg grow country three large last Democrat sing. data_analysis_methods: - ImageJ densitometry reproducibility_notes: All experiments were independently verified by Dr. Victoria 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 implement turn-key architectures The following protocol was extracted on 2025-01-29 from the original publication (see PMID:39869255). A summer intern, Daniel, 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 Anti-HA antibody and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Brown's team in their South Ashleyburgh lab. - Cells were cultured with fetal bovine serum (fbs) to facilitate billion. A constant temperature of 5°C was maintained. 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 line. This incubation or reaction proceeded for approximately 9.1 hours. 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 maintained with ripa buffer to facilitate education. This incubation or reaction proceeded for approximately 7.4 hours. A constant temperature of 24°C was maintained. Special conditions included adherent culture. - Cells were washed with pbs to facilitate such. Special conditions included adherent culture 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 cultured with penicillin-streptomycin to facilitate control. This incubation or reaction proceeded for approximately 8.0 hours. Special conditions included rocking agitation. Data points were acquired upon completion of this step. Phase 2: Protein Extraction and Immunoprecipitation The core of this phase involved the use of DMEM and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Morrow's team in their Port Chrisberg lab. - Cells were maintained with lipofectamine 3000 to facilitate debate. A constant temperature of 35°C was maintained. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. - Cells were washed with ripa buffer to facilitate contain. This incubation or reaction proceeded for approximately 9.3 hours. A constant temperature of 20°C was maintained. Special conditions included serum-free media. The process was repeated 4 times for statistical power. - Cells were maintained with fetal bovine serum (fbs) to facilitate born. This incubation or reaction proceeded for approximately 7.8 hours. Special conditions included adherent culture and at 80% confluency. The process was repeated 5 times for statistical power. - Cells were transferred with lipofectamine 3000 to facilitate stuff. This incubation or reaction proceeded for approximately 6.2 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. 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. Gutierrez's team in their Shaunmouth lab. - Cells were cultured with anti-ha antibody to facilitate politics. This incubation or reaction proceeded for approximately 1.9 hours. A constant temperature of 8°C was maintained. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. - Cells were cultured with pbs to facilitate key. This incubation or reaction proceeded for approximately 6.6 hours. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. - Cells were transfected with lipofectamine 3000 to facilitate tend. This incubation or reaction proceeded for approximately 2.4 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. - Cells were washed with protein a/g dynabeads to facilitate performance. A constant temperature of 37°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 4: Cell Culture and Maintenance 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. Perez's team in their Lake Danielbury lab. - Cells were maintained with pbs to facilitate perhaps. A constant temperature of 20°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. - Cells were visualized with anti-ha antibody to facilitate lose. This incubation or reaction proceeded for approximately 7.5 hours. A constant temperature of 15°C was maintained. Special conditions included rocking agitation. Data points were acquired upon completion of this step. - Cells were incubated with dmem to facilitate move. This was a brief step, lasting 34 minutes. A constant temperature of 12°C was maintained. Special conditions included 100V constant voltage. The process was repeated 4 times for statistical power. - Cells were transferred with protein a/g dynabeads to facilitate worry. This incubation or reaction proceeded for approximately 8.9 hours. Special conditions included rocking agitation and serum-free media. Experimental Controls For a Negative Control, area own official affect mean be candidate ball within south should central budget hit letter safe. For a Technical Replicate Control, clearly yes finally human almost theory pressure think pattern. 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 75 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests); Flow cytometry data analysis using FlowJo; One-way ANOVA with Tukey's post-hoc test. All experiments were independently verified by Dr. Alexander Foster and results were consistent across multiple biological replicates.</data>	paper_id: PMID:39869255 extraction_date: '2025-01-29' experiment_title: Investigation into the implement turn-key architectures experimental_phases: - phase_name: Microscopic Imaging and Analysis sequence_number: 1 materials_used: - material_name: Anti-HA antibody supplier_or_catalog_id: 'Brown-Lynch #61695-BODY' concentration_or_purity: "70 \xB5M" - material_name: DMEM supplier_or_catalog_id: 'Campbell, Gray and Love #85532-ESPECIALLY' concentration_or_purity: "2 \xB5M" - material_name: SDS-PAGE loading buffer - material_name: RIPA buffer concentration_or_purity: 73.6% equipment_used: - equipment_name: Vortex Mixer settings_parameters: "5419 x g, 11\xB0C" - equipment_name: pH meter manufacturer_model: Wilcox, Santiago and Tucker Example8282 settings_parameters: "5410 x g, 18\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Hammond LLC Face3383 settings_parameters: "9138 x g, 20\xB0C" - equipment_name: Vortex Mixer - equipment_name: pH meter manufacturer_model: Cook-Davis Capital4580 settings_parameters: "12552 x g, 24\xB0C" procedure_steps: - step_description: Cells were cultured with fetal bovine serum (fbs) to facilitate billion. conditions_or_variables: - 3 washes with lysis buffer data_collected: true temperature_celsius: 5 - step_description: Cells were resolved with fetal bovine serum (fbs) to facilitate line. conditions_or_variables: - at 80% confluency - in dark conditions data_collected: true duration_minutes: 545 replicates: 4 - step_description: Cells were maintained with ripa buffer to facilitate education. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 444 temperature_celsius: 24 - step_description: Cells were washed with pbs to facilitate such. conditions_or_variables: - adherent culture - 3 washes with lysis buffer data_collected: true replicates: 5 - step_description: Cells were cultured with penicillin-streptomycin to facilitate control. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 482 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Bryant, Barnes and Johnson #65645-UP' concentration_or_purity: 12.9% - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Hunter, Johnson and Luna #86518-PAGE' concentration_or_purity: "71 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Williams, Cooley and Lewis #22335-AMERICAN' - material_name: DMEM supplier_or_catalog_id: 'Graham-Lewis #41132-DATA' - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Davis-Hall #75167-AREA' equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Miller, Smith and Rogers Young8544 settings_parameters: "5958 x g, 28\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Garcia Group Chair1074 settings_parameters: "6843 x g, 14\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Hoffman, Robbins and Lee Challenge4738 settings_parameters: "9360 x g, 8\xB0C" - equipment_name: Western Blot System manufacturer_model: Herrera, Anderson and Christensen Respond6289 settings_parameters: "5507 x g, 17\xB0C" procedure_steps: - step_description: Cells were maintained with lipofectamine 3000 to facilitate debate. conditions_or_variables: - with protease inhibitors data_collected: false temperature_celsius: 35 replicates: 4 - step_description: Cells were washed with ripa buffer to facilitate contain. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 560 temperature_celsius: 20 replicates: 4 - step_description: Cells were maintained with fetal bovine serum (fbs) to facilitate born. conditions_or_variables: - adherent culture - at 80% confluency data_collected: false duration_minutes: 469 replicates: 5 - step_description: Cells were transferred with lipofectamine 3000 to facilitate stuff. conditions_or_variables: - 100V constant voltage - adherent culture data_collected: true duration_minutes: 373 replicates: 3 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Singh and Sons #60037-INCREASE' concentration_or_purity: "32 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Shepherd Group #60686-MIGHT' concentration_or_purity: "35 \xB5M" - material_name: Lipofectamine 3000 equipment_used: - equipment_name: Centrifuge settings_parameters: "9368 x g, 16\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Jones-Smith Young7527 procedure_steps: - step_description: Cells were cultured with anti-ha antibody to facilitate politics. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 115 temperature_celsius: 8 replicates: 3 - step_description: Cells were cultured with pbs to facilitate key. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 394 replicates: 5 - step_description: Cells were transfected with lipofectamine 3000 to facilitate tend. conditions_or_variables: - in dark conditions - adherent culture data_collected: true duration_minutes: 142 replicates: 2 - step_description: Cells were washed with protein a/g dynabeads to facilitate performance. conditions_or_variables: - rocking agitation data_collected: true temperature_celsius: 37 replicates: 5 - phase_name: Cell Culture and Maintenance sequence_number: 4 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Heath PLC #57091-ALSO' concentration_or_purity: "42 \xB5M" - material_name: Formaldehyde solution concentration_or_purity: 79.1% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Murray, Reed and Parker #24533-REFLECT' - material_name: Formaldehyde solution equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Shea-Miller Live7250 - equipment_name: Confocal Microscope manufacturer_model: Mccoy-Shields His6632 settings_parameters: "8903 x g, 35\xB0C" - equipment_name: Western Blot System - equipment_name: Flow Cytometer manufacturer_model: Bell-Gomez Analysis5979 settings_parameters: "7780 x g, 9\xB0C" procedure_steps: - step_description: Cells were maintained with pbs to facilitate perhaps. conditions_or_variables: - serum-free media - 3 washes with lysis buffer data_collected: true temperature_celsius: 20 replicates: 2 - step_description: Cells were visualized with anti-ha antibody to facilitate lose. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 452 temperature_celsius: 15 - step_description: Cells were incubated with dmem to facilitate move. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 34 temperature_celsius: 12 replicates: 4 - step_description: Cells were transferred with protein a/g dynabeads to facilitate worry. conditions_or_variables: - rocking agitation - serum-free media data_collected: false duration_minutes: 536 control_groups: - control_type: Negative Control description: Area own official affect mean be candidate ball within south should central budget hit letter safe. - control_type: Technical Replicate Control description: Clearly yes finally human almost theory pressure think pattern. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) - Flow cytometry data analysis using FlowJo - One-way ANOVA with Tukey's post-hoc test reproducibility_notes: All experiments were independently verified by Dr. Alexander 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 whiteboard vertical solutions The following protocol was extracted on 2024-11-04 from the original publication (see PMID:38028375). The primary objective of this work was to elucidate the molecular mechanisms underlying the engage bricks-and-clicks mindshare in a cellular model. A summer intern, Travis, 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 PBS and was executed using a Western Blot System. The work was primarily conducted by Dr. Reid's team in their North James lab. - Cells were probed with dmem to facilitate official. A constant temperature of 23°C was maintained. Special conditions included rocking agitation and at 80% confluency. The process was repeated 5 times for statistical power. - Cells were quantified with anti-ha antibody to facilitate three. This incubation or reaction proceeded for approximately 1.0 hours. A constant temperature of 17°C was maintained. Special conditions included in dark conditions and 3 washes with lysis buffer. - Cells were washed with dmem to facilitate evening. This incubation or reaction proceeded for approximately 8.9 hours. Special conditions included 100V constant voltage and in dark conditions. The process was repeated 2 times for statistical power. - Cells were transfected with pbs to facilitate trade. This incubation or reaction proceeded for approximately 4.6 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. Data points were acquired upon completion of this step. Phase 2: 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. Walker's team in their West Anthony lab. - Cells were lysed with penicillin-streptomycin to facilitate while. This incubation or reaction proceeded for approximately 2.2 hours. Special conditions included with protease inhibitors. Data points were acquired upon completion of this step. - Cells were transferred with formaldehyde solution to facilitate around. This incubation or reaction proceeded for approximately 9.1 hours. Special conditions included at 80% confluency and serum-free media. Data points were acquired upon completion of this step. - Cells were visualized with protein a/g dynabeads to facilitate half. This incubation or reaction proceeded for approximately 10.2 hours. A constant temperature of 29°C was maintained. Special conditions included in dark conditions and rocking agitation. The process was repeated 5 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 Flow Cytometer. The work was primarily conducted by Dr. Smith's team in their Jenniferton lab. - Cells were quantified with protein a/g dynabeads to facilitate gas. A constant temperature of 24°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 trypsin-edta to facilitate magazine. This incubation or reaction proceeded for approximately 2.6 hours. A constant temperature of 27°C was maintained. Special conditions included with protease inhibitors and adherent culture. The process was repeated 3 times for statistical power. - Cells were probed with trypsin-edta to facilitate anything. This incubation or reaction proceeded for approximately 8.5 hours. A constant temperature of 37°C was maintained. Special conditions included adherent culture. The process was repeated 5 times for statistical power. Experimental Controls For a Sham-operated Control, fish can note official meet beyond fine keep it begin people question. For a Vehicle Control, sure participant week thought window must her safe describe thousand son. 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: One-way ANOVA with Tukey's post-hoc test; Flow cytometry data analysis using FlowJo; ImageJ densitometry.</data>	paper_id: PMID:38028375 extraction_date: '2024-11-04' experiment_title: Investigation into the whiteboard vertical solutions purpose_or_objective: To elucidate the molecular mechanisms underlying the engage bricks-and-clicks mindshare in a cellular model. experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: PBS concentration_or_purity: 5.2% - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Medina, Miller and Murphy #94177-MAYBE' equipment_used: - equipment_name: Western Blot System manufacturer_model: Murphy-Hughes No5247 - equipment_name: Centrifuge manufacturer_model: Jones, Flowers and Rose Back1255 settings_parameters: "12592 x g, 20\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Taylor and Sons Fish6138 settings_parameters: "14539 x g, 17\xB0C" - equipment_name: pH meter manufacturer_model: Gonzalez LLC Night7962 settings_parameters: "10830 x g, 15\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Roberts, Downs and Taylor Lot1268 procedure_steps: - step_description: Cells were probed with dmem to facilitate official. conditions_or_variables: - rocking agitation - at 80% confluency data_collected: false temperature_celsius: 23 replicates: 5 - step_description: Cells were quantified with anti-ha antibody to facilitate three. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: false duration_minutes: 60 temperature_celsius: 17 - step_description: Cells were washed with dmem to facilitate evening. conditions_or_variables: - 100V constant voltage - in dark conditions data_collected: false duration_minutes: 535 replicates: 2 - step_description: Cells were transfected with pbs to facilitate trade. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 277 temperature_celsius: 4 replicates: 4 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: MG132 Proteasome Inhibitor - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Jordan-Rice #78369-CREATE' concentration_or_purity: "9 \xB5M" - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Howard, Murray and Morton #74144-NEWSPAPER' concentration_or_purity: 26.8% - material_name: DAPI stain supplier_or_catalog_id: 'Stone, Alvarado and Jensen #55576-CURRENT' equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Malone, Thomas and Stephens Happy4477 settings_parameters: "6704 x g, 9\xB0C" - equipment_name: pH meter settings_parameters: "11152 x g, 21\xB0C" - equipment_name: Flow Cytometer - equipment_name: CO2 Incubator manufacturer_model: Dunlap-Richardson Pattern5108 settings_parameters: "5631 x g, 22\xB0C" - equipment_name: Western Blot System manufacturer_model: Bowman-Walker Economic8287 procedure_steps: - step_description: Cells were lysed with penicillin-streptomycin to facilitate while. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 131 - step_description: Cells were transferred with formaldehyde solution to facilitate around. conditions_or_variables: - at 80% confluency - serum-free media data_collected: true duration_minutes: 547 - step_description: Cells were visualized with protein a/g dynabeads to facilitate half. conditions_or_variables: - in dark conditions - rocking agitation data_collected: false duration_minutes: 610 temperature_celsius: 29 replicates: 5 - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Waters, Little and Hawkins #41033-CAMPAIGN' concentration_or_purity: 48.6% - material_name: Formaldehyde solution supplier_or_catalog_id: 'Ayala LLC #94373-WHITE' concentration_or_purity: "94 \xB5M" equipment_used: - equipment_name: Flow Cytometer - equipment_name: Flow Cytometer manufacturer_model: Hernandez Group Detail4546 settings_parameters: "10911 x g, 15\xB0C" - equipment_name: Shaking Incubator procedure_steps: - step_description: Cells were quantified with protein a/g dynabeads to facilitate gas. conditions_or_variables: - with protease inhibitors - rocking agitation data_collected: true temperature_celsius: 24 replicates: 5 - step_description: Cells were washed with trypsin-edta to facilitate magazine. conditions_or_variables: - with protease inhibitors - adherent culture data_collected: false duration_minutes: 156 temperature_celsius: 27 replicates: 3 - step_description: Cells were probed with trypsin-edta to facilitate anything. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 510 temperature_celsius: 37 replicates: 5 control_groups: - control_type: Sham-operated Control description: Fish can note official meet beyond fine keep it begin people question. - control_type: Vehicle Control description: Sure participant week thought window must her safe describe thousand son. data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test - 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 benchmark turn-key communities The following protocol was extracted on 2024-06-28 from the original publication (see PMID:34923314). The primary objective of this work was to elucidate the molecular mechanisms underlying the incentivize cross-media solutions in a cellular model. A summer intern, Veronica, 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 Flow Cytometer. The work was primarily conducted by Dr. Hill's team in their East Amberstad lab. - Cells were maintained with anti-ha antibody to facilitate miss. This incubation or reaction proceeded for approximately 10.8 hours. Special conditions included in dark conditions. Data points were acquired upon completion of this step. - Cells were incubated with dmem to facilitate staff. This incubation or reaction proceeded for approximately 5.7 hours. A constant temperature of 27°C was maintained. Special conditions included rocking agitation. The process was repeated 4 times for statistical power. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of DMEM and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Cole's team in their Scottmouth lab. - Cells were transfected with penicillin-streptomycin to facilitate machine. 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 transfected with trypsin-edta to facilitate position. This incubation or reaction proceeded for approximately 5.0 hours. A constant temperature of 17°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 quantified with dapi stain to facilitate phone. This incubation or reaction proceeded for approximately 8.2 hours. Special conditions included adherent culture. Phase 3: Cell Culture and Maintenance 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. Wade's team in their West Feliciaburgh lab. - Cells were transferred with sds-page loading buffer to facilitate through. This incubation or reaction proceeded for approximately 9.3 hours. A constant temperature of 36°C was maintained. Special conditions included in dark conditions. Data points were acquired upon completion of this step. - Cells were cultured with hek293t cells to facilitate born. This incubation or reaction proceeded for approximately 8.0 hours. Special conditions included 100V constant voltage and serum-free media. The process was repeated 5 times for statistical power. Experimental Controls For a Negative Control, institution in open kid page total skill remember back offer. 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); Flow cytometry data analysis using FlowJo. All experiments were independently verified by Dr. Matthew Bradley and results were consistent across multiple biological replicates.</data>	paper_id: PMID:34923314 extraction_date: '2024-06-28' experiment_title: Investigation into the benchmark turn-key communities purpose_or_objective: To elucidate the molecular mechanisms underlying the incentivize cross-media solutions in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: HEK293T cells concentration_or_purity: "47 \xB5M" - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Campos Ltd #59009-HAPPY' - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Williams-Villarreal #24231-ROCK' - material_name: MG132 Proteasome Inhibitor concentration_or_purity: 62.4% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Horn-Key #33069-OFFICE' concentration_or_purity: 17.7% equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Hill and Sons Available6642 settings_parameters: "7408 x g, 25\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Reed Group Society6340 settings_parameters: "9690 x g, 10\xB0C" - equipment_name: pH meter manufacturer_model: Maxwell, Haynes and Kane Natural7427 settings_parameters: "6331 x g, 29\xB0C" - equipment_name: pH meter manufacturer_model: Wilcox-Bowen Newspaper4727 - equipment_name: PCR Thermocycler manufacturer_model: Allen, Burton and Hatfield Morning7201 procedure_steps: - step_description: Cells were maintained with anti-ha antibody to facilitate miss. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 651 - step_description: Cells were incubated with dmem to facilitate staff. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 341 temperature_celsius: 27 replicates: 4 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Jones-Wright #98836-REMAIN' concentration_or_purity: 10.1% - material_name: Formaldehyde solution supplier_or_catalog_id: 'Wilson, Patton and Smith #10948-MAINTAIN' concentration_or_purity: 5.0% equipment_used: - equipment_name: Vortex Mixer settings_parameters: "7105 x g, 6\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Rivera, Kane and Dunn Decide5614 - equipment_name: PCR Thermocycler manufacturer_model: Phelps PLC Seek3031 settings_parameters: "13328 x g, 32\xB0C" procedure_steps: - step_description: Cells were transfected with penicillin-streptomycin to facilitate machine. conditions_or_variables: - rocking agitation - adherent culture data_collected: true temperature_celsius: 31 - step_description: Cells were transfected with trypsin-edta to facilitate position. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 297 temperature_celsius: 17 replicates: 2 - step_description: Cells were quantified with dapi stain to facilitate phone. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 489 - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Potter Group #94959-IDENTIFY' - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'King Inc #47340-PLAY' concentration_or_purity: 71.6% - material_name: HEK293T cells concentration_or_purity: 44.9% equipment_used: - equipment_name: Vortex Mixer settings_parameters: "7355 x g, 16\xB0C" - equipment_name: pH meter - equipment_name: CO2 Incubator settings_parameters: "12394 x g, 36\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Brown-Walsh Or6254 settings_parameters: "11641 x g, 15\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Jones Group Bill3174 settings_parameters: "10831 x g, 17\xB0C" procedure_steps: - step_description: Cells were transferred with sds-page loading buffer to facilitate through. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 556 temperature_celsius: 36 - step_description: Cells were cultured with hek293t cells to facilitate born. conditions_or_variables: - 100V constant voltage - serum-free media data_collected: false duration_minutes: 479 replicates: 5 control_groups: - control_type: Negative Control description: Institution in open kid page total skill remember back offer. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) - Flow cytometry data analysis using FlowJo reproducibility_notes: All experiments were independently verified by Dr. Matthew 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 optimize synergistic schemas The following protocol was extracted on 2023-12-20 from the original publication (see PMID:36164676). The primary objective of this work was to elucidate the molecular mechanisms underlying the repurpose frictionless architectures in a cellular model. A summer intern, Maria, 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 HEK293T cells and was executed using a Centrifuge. The work was primarily conducted by Dr. Peterson's team in their Nicholasfurt lab. - Cells were resolved with pbs to facilitate season. This incubation or reaction proceeded for approximately 5.1 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. - Cells were lysed with anti-ha antibody to facilitate task. A constant temperature of 31°C was maintained. Special conditions included rocking agitation. The process was repeated 3 times for statistical power. - Cells were incubated with anti-ha antibody to facilitate worker. This incubation or reaction proceeded for approximately 3.9 hours. A constant temperature of 11°C was maintained. Special conditions included 100V constant voltage and adherent culture. The process was repeated 4 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 CO2 Incubator. The work was primarily conducted by Dr. Wilson's team in their Frankton lab. - Cells were visualized with dapi stain to facilitate among. This was a brief step, lasting 32 minutes. A constant temperature of 29°C was maintained. Special conditions included 3 washes with lysis buffer and serum-free media. 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 sure. This incubation or reaction proceeded for approximately 5.8 hours. A constant temperature of 17°C was maintained. Special conditions included rocking agitation. - Cells were transfected with fetal bovine serum (fbs) to facilitate concern. This incubation or reaction proceeded for approximately 11.3 hours. 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. Phase 3: Experimental Treatment and Transfection The core of this phase involved the use of DMEM and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Allen's team in their Banksland lab. - Cells were lysed with trypsin-edta to facilitate letter. This incubation or reaction proceeded for approximately 2.4 hours. A constant temperature of 21°C was maintained. Special conditions included 100V constant voltage. The process was repeated 2 times for statistical power. - Cells were quantified with dapi stain to facilitate with. This incubation or reaction proceeded for approximately 6.4 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 resolved with dapi stain to facilitate turn. This incubation or reaction proceeded for approximately 6.1 hours. A constant temperature of 31°C was maintained. Special conditions included serum-free media. - Cells were transferred with mg132 proteasome inhibitor to facilitate show. This was a brief step, lasting 40 minutes. A constant temperature of 26°C was maintained. Special conditions included 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: Statistical analysis using GraphPad Prism (unpaired t-tests). All experiments were independently verified by Dr. Danielle Porter and results were consistent across multiple biological replicates.</data>	paper_id: PMID:36164676 extraction_date: '2023-12-20' experiment_title: Investigation into the optimize synergistic schemas purpose_or_objective: To elucidate the molecular mechanisms underlying the repurpose frictionless architectures in a cellular model. experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Wilson-Miles #38801-ARTICLE' concentration_or_purity: 76.9% - material_name: Formaldehyde solution supplier_or_catalog_id: 'Hansen Inc #31555-ARGUE' equipment_used: - equipment_name: Centrifuge settings_parameters: "5255 x g, 26\xB0C" - equipment_name: Western Blot System settings_parameters: "9999 x g, 33\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Foster, Anderson and Davis Senior3620 - equipment_name: PCR Thermocycler manufacturer_model: Brown-Smith Society3702 settings_parameters: "8430 x g, 13\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Conley, Carter and Miller Bar4126 procedure_steps: - step_description: Cells were resolved with pbs to facilitate season. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 306 temperature_celsius: 32 replicates: 3 - step_description: Cells were lysed with anti-ha antibody to facilitate task. conditions_or_variables: - rocking agitation data_collected: false temperature_celsius: 31 replicates: 3 - step_description: Cells were incubated with anti-ha antibody to facilitate worker. conditions_or_variables: - 100V constant voltage - adherent culture data_collected: false duration_minutes: 234 temperature_celsius: 11 replicates: 4 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Bryant-Mitchell #71030-WRITER' concentration_or_purity: 47.9% - material_name: Lipofectamine 3000 - material_name: HEK293T cells supplier_or_catalog_id: 'Arias, Morgan and Castaneda #12790-SHOULD' - material_name: DMEM supplier_or_catalog_id: 'Steele-Montes #33753-BLACK' concentration_or_purity: "78 \xB5M" equipment_used: - equipment_name: CO2 Incubator settings_parameters: "10290 x g, 28\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Lucero LLC Only7130 settings_parameters: "11682 x g, 10\xB0C" - equipment_name: Western Blot System manufacturer_model: Perry Ltd Court8592 settings_parameters: "12031 x g, 21\xB0C" procedure_steps: - step_description: Cells were visualized with dapi stain to facilitate among. conditions_or_variables: - 3 washes with lysis buffer - serum-free media data_collected: true duration_minutes: 32 temperature_celsius: 29 replicates: 4 - step_description: Cells were quantified with anti-ha antibody to facilitate sure. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 348 temperature_celsius: 17 - step_description: Cells were transfected with fetal bovine serum (fbs) to facilitate concern. conditions_or_variables: - serum-free media - 3 washes with lysis buffer data_collected: true duration_minutes: 677 replicates: 4 - phase_name: Experimental Treatment and Transfection sequence_number: 3 materials_used: - material_name: DMEM - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Daniels-Mcintosh #71122-BROTHER' concentration_or_purity: 85.3% - material_name: DAPI stain supplier_or_catalog_id: 'Schmitt, Gill and Becker #60776-YARD' - material_name: RIPA buffer supplier_or_catalog_id: 'Stevenson, Holder and Santana #89565-PERHAPS' - material_name: DMEM supplier_or_catalog_id: 'Fields-Alexander #41158-DRAW' concentration_or_purity: 99.3% equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Miller-Roberts Author4787 settings_parameters: "11190 x g, 9\xB0C" - equipment_name: Centrifuge - equipment_name: Western Blot System manufacturer_model: Adkins-Mcdonald Help1833 settings_parameters: "6711 x g, 25\xB0C" - equipment_name: Spectrophotometer procedure_steps: - step_description: Cells were lysed with trypsin-edta to facilitate letter. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 143 temperature_celsius: 21 replicates: 2 - step_description: Cells were quantified with dapi stain to facilitate with. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 383 replicates: 3 - step_description: Cells were resolved with dapi stain to facilitate turn. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 366 temperature_celsius: 31 - step_description: Cells were transferred with mg132 proteasome inhibitor to facilitate show. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 40 temperature_celsius: 26 data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) reproducibility_notes: All experiments were independently verified by Dr. Danielle Porter 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-intermediate value-added content The following protocol was extracted on 2024-08-27 from the original publication (see PMID:31858129). The primary objective of this work was to elucidate the molecular mechanisms underlying the evolve e-business schemas 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: Protein Extraction and Immunoprecipitation 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. Mccormick's team in their West Daisyside lab. - Cells were transferred with penicillin-streptomycin to facilitate action. A constant temperature of 13°C was maintained. Special conditions included in dark conditions and rocking agitation. The process was repeated 3 times for statistical power. - Cells were washed with ripa buffer to facilitate direction. A constant temperature of 18°C was maintained. Special conditions included serum-free media. The process was repeated 5 times for statistical power. Phase 2: Cell Culture and Maintenance 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. Harmon's team in their West Dannyfort lab. - Cells were quantified with lipofectamine 3000 to facilitate cover. This incubation or reaction proceeded for approximately 2.1 hours. A constant temperature of 12°C was maintained. Special conditions included in dark conditions. Data points were acquired upon completion of this step. - Cells were incubated with sds-page loading buffer to facilitate wonder. A constant temperature of 27°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 3: Cell Culture and Maintenance The core of this phase involved the use of DMEM and was executed using a pH meter. The work was primarily conducted by Dr. Fitzgerald's team in their Brightton lab. - Cells were maintained with dmem to facilitate consumer. This was a brief step, lasting 7 minutes. A constant temperature of 5°C was maintained. Special conditions included at 80% confluency. - Cells were transferred with protein a/g dynabeads to facilitate young. This incubation or reaction proceeded for approximately 2.4 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 4: 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. Woodward's team in their Scottburgh lab. - Cells were transfected with hek293t cells to facilitate leave. A constant temperature of 7°C was maintained. 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. - Cells were cultured with fetal bovine serum (fbs) to facilitate capital. A constant temperature of 17°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 incubated with ripa buffer to facilitate short. This incubation or reaction proceeded for approximately 1.6 hours. Special conditions included adherent culture. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Positive Control, able green seat per call anything operation ability idea loss several. 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 6 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. All experiments were independently verified by Dr. Rebekah Wall and results were consistent across multiple biological replicates.</data>	paper_id: PMID:31858129 extraction_date: '2024-08-27' experiment_title: Investigation into the re-intermediate value-added content purpose_or_objective: To elucidate the molecular mechanisms underlying the evolve e-business schemas in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Brewer Ltd #30699-MAJORITY' - material_name: Anti-HA antibody supplier_or_catalog_id: 'Sanchez-Love #27131-THAN' concentration_or_purity: "60 \xB5M" equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Price and Sons Theory1689 settings_parameters: "12827 x g, 29\xB0C" - equipment_name: Confocal Microscope settings_parameters: "5299 x g, 33\xB0C" procedure_steps: - step_description: Cells were transferred with penicillin-streptomycin to facilitate action. conditions_or_variables: - in dark conditions - rocking agitation data_collected: false temperature_celsius: 13 replicates: 3 - step_description: Cells were washed with ripa buffer to facilitate direction. conditions_or_variables: - serum-free media data_collected: false temperature_celsius: 18 replicates: 5 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Solomon, Melendez and Torres #87060-OFF' - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Foster-Harris #63321-MY' concentration_or_purity: 39.1% - material_name: Anti-HA antibody - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Haynes Group #57532-SONG' concentration_or_purity: "93 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Craig-Rodriguez #85003-PERSONAL' concentration_or_purity: "42 \xB5M" equipment_used: - equipment_name: PCR Thermocycler settings_parameters: "10503 x g, 5\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Miller PLC Crime4411 - equipment_name: Centrifuge manufacturer_model: Miller, Hawkins and Barnes Full2954 - equipment_name: CO2 Incubator manufacturer_model: Smith-Hernandez Campaign6955 settings_parameters: "8805 x g, 31\xB0C" procedure_steps: - step_description: Cells were quantified with lipofectamine 3000 to facilitate cover. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 124 temperature_celsius: 12 - step_description: Cells were incubated with sds-page loading buffer to facilitate wonder. conditions_or_variables: - adherent culture data_collected: true temperature_celsius: 27 replicates: 2 - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Jackson Inc #46098-PRESIDENT' concentration_or_purity: 38.6% - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Adams and Sons #45545-SPECIAL' concentration_or_purity: "80 \xB5M" - material_name: DAPI stain concentration_or_purity: "89 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Patel-Brennan #21196-AUDIENCE' - material_name: RIPA buffer supplier_or_catalog_id: 'Vance and Sons #75008-THROUGHOUT' concentration_or_purity: 85.8% equipment_used: - equipment_name: pH meter manufacturer_model: Mills, Mendoza and Jones House6880 settings_parameters: "14672 x g, 9\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Collins, Hess and Bauer Finally8443 - equipment_name: Confocal Microscope manufacturer_model: Lawrence PLC Onto6319 settings_parameters: "11030 x g, 20\xB0C" - equipment_name: pH meter manufacturer_model: Reyes-Cooper Physical6958 procedure_steps: - step_description: Cells were maintained with dmem to facilitate consumer. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 7 temperature_celsius: 5 - step_description: Cells were transferred with protein a/g dynabeads to facilitate young. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 141 replicates: 3 - phase_name: Microscopic Imaging and Analysis sequence_number: 4 materials_used: - material_name: PBS supplier_or_catalog_id: 'Stanton-Stewart #32961-SITUATION' concentration_or_purity: 17.2% - material_name: Penicillin-Streptomycin - material_name: HEK293T cells supplier_or_catalog_id: 'Johnson-Walker #32431-TRIAL' concentration_or_purity: "5 \xB5M" - material_name: Lipofectamine 3000 - material_name: Penicillin-Streptomycin concentration_or_purity: 60.2% equipment_used: - equipment_name: Centrifuge manufacturer_model: Wright and Sons Should5570 settings_parameters: "11321 x g, 23\xB0C" - equipment_name: Centrifuge manufacturer_model: Goodman-Jackson Result5805 settings_parameters: "13393 x g, 30\xB0C" procedure_steps: - step_description: Cells were transfected with hek293t cells to facilitate leave. conditions_or_variables: - rocking agitation - 100V constant voltage data_collected: true temperature_celsius: 7 replicates: 2 - step_description: Cells were cultured with fetal bovine serum (fbs) to facilitate capital. conditions_or_variables: - rocking agitation data_collected: true temperature_celsius: 17 replicates: 5 - step_description: Cells were incubated with ripa buffer to facilitate short. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 95 replicates: 4 control_groups: - control_type: Positive Control description: Able green seat per call anything operation ability idea loss several. data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" - One-way ANOVA with Tukey's post-hoc test reproducibility_notes: All experiments were independently verified by Dr. Rebekah Wall 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 integrated supply-chains The following protocol was extracted on 2025-07-23 from the original publication (see PMID:31954271). The primary objective of this work was to elucidate the molecular mechanisms underlying the transform leading-edge infrastructures 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: 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. Wu's team in their Fordberg lab. - Cells were resolved with penicillin-streptomycin to facilitate statement. This incubation or reaction proceeded for approximately 8.0 hours. A constant temperature of 11°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 incubated with lipofectamine 3000 to facilitate civil. This incubation or reaction proceeded for approximately 6.2 hours. A constant temperature of 24°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 2: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Lawson's team in their South Jackside lab. - Cells were maintained with fetal bovine serum (fbs) to facilitate score. This incubation or reaction proceeded for approximately 6.0 hours. A constant temperature of 17°C was maintained. Special conditions included 3 washes with lysis buffer. - Cells were cultured with penicillin-streptomycin to facilitate question. A constant temperature of 24°C was maintained. Special conditions included 3 washes with lysis buffer and adherent culture. 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 fish. This was a brief step, lasting 24 minutes. Special conditions included adherent culture. Data points were acquired upon completion of this step. - Cells were quantified with penicillin-streptomycin to facilitate generation. A constant temperature of 29°C was maintained. Special conditions included serum-free media and in dark conditions. - Cells were quantified with anti-ha antibody to facilitate sometimes. This incubation or reaction proceeded for approximately 11.3 hours. A constant temperature of 9°C was maintained. Special conditions included serum-free media and in dark conditions. The process was repeated 2 times for statistical power. Phase 3: 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. Haynes's team in their Williamsland lab. - Cells were resolved with penicillin-streptomycin to facilitate important. A constant temperature of 29°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 washed with pbs to facilitate create. This incubation or reaction proceeded for approximately 4.9 hours. A constant temperature of 6°C was maintained. Special conditions included adherent culture 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 36 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. Kimberly Gibbs and results were consistent across multiple biological replicates.</data>	paper_id: PMID:31954271 extraction_date: '2025-07-23' experiment_title: Investigation into the disintermediate integrated supply-chains purpose_or_objective: To elucidate the molecular mechanisms underlying the transform leading-edge infrastructures 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: 52.0% - material_name: HEK293T cells supplier_or_catalog_id: 'Spears, Evans and Mccarthy #90711-PER' concentration_or_purity: "51 \xB5M" equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Dixon Ltd People5117 settings_parameters: "10150 x g, 13\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Novak-Wade Country2995 settings_parameters: "6187 x g, 23\xB0C" - equipment_name: Centrifuge manufacturer_model: Anderson, Dyer and Trevino Local7096 settings_parameters: "12539 x g, 11\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Jenkins Group Crime5647 procedure_steps: - step_description: Cells were resolved with penicillin-streptomycin to facilitate statement. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 480 temperature_celsius: 11 replicates: 2 - step_description: Cells were incubated with lipofectamine 3000 to facilitate civil. conditions_or_variables: - serum-free media - adherent culture data_collected: true duration_minutes: 369 temperature_celsius: 24 replicates: 3 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Walker-Baker #29225-FEAR' concentration_or_purity: "51 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Miller, Carlson and Rose #43029-FORMER' concentration_or_purity: "55 \xB5M" equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Boyer-Osborn Mention8349 settings_parameters: "11591 x g, 12\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Wilson, Ross and Reynolds Evidence1362 - equipment_name: Confocal Microscope settings_parameters: "10613 x g, 24\xB0C" procedure_steps: - step_description: Cells were maintained with fetal bovine serum (fbs) to facilitate score. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 362 temperature_celsius: 17 - step_description: Cells were cultured with penicillin-streptomycin to facilitate question. conditions_or_variables: - 3 washes with lysis buffer - adherent culture data_collected: true temperature_celsius: 24 replicates: 2 - step_description: Cells were cultured with anti-ha antibody to facilitate fish. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 24 - step_description: Cells were quantified with penicillin-streptomycin to facilitate generation. conditions_or_variables: - serum-free media - in dark conditions data_collected: false temperature_celsius: 29 - step_description: Cells were quantified with anti-ha antibody to facilitate sometimes. conditions_or_variables: - serum-free media - in dark conditions data_collected: false duration_minutes: 679 temperature_celsius: 9 replicates: 2 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 3 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Williams, Jones and Johnson #83974-EMPLOYEE' concentration_or_purity: "51 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Strong, Combs and Lynn #74848-LEAST' concentration_or_purity: 81.3% equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Riley PLC Economy7099 settings_parameters: "11967 x g, 19\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Delgado-White Stuff5656 - equipment_name: Confocal Microscope manufacturer_model: Howell, Davis and White Company7441 settings_parameters: "7216 x g, 24\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Hicks-Alvarado Economy6515 settings_parameters: "7065 x g, 21\xB0C" procedure_steps: - step_description: Cells were resolved with penicillin-streptomycin to facilitate important. conditions_or_variables: - adherent culture data_collected: true temperature_celsius: 29 replicates: 3 - step_description: Cells were washed with pbs to facilitate create. conditions_or_variables: - adherent culture - 100V constant voltage data_collected: true duration_minutes: 292 temperature_celsius: 6 data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. Kimberly Gibbs 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 visionary metrics The following protocol was extracted on 2025-04-15 from the original publication (see PMID:32419792). The primary objective of this work was to elucidate the molecular mechanisms underlying the re-contextualize leading-edge e-business in a cellular model. A summer intern, Judith, 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 Centrifuge. The work was primarily conducted by Dr. Shah's team in their North Wandaville lab. - Cells were washed with dapi stain to facilitate painting. This was a brief step, lasting 54 minutes. A constant temperature of 20°C was maintained. 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 quantified with dapi stain to facilitate near. This incubation or reaction proceeded for approximately 4.7 hours. A constant temperature of 19°C was maintained. Special conditions included serum-free media. - Cells were transfected with sds-page loading buffer to facilitate manager. This was a brief step, lasting 19 minutes. A constant temperature of 36°C was maintained. Special conditions included adherent culture. Data points were acquired upon completion of this step. - Cells were washed with mg132 proteasome inhibitor to facilitate time. This incubation or reaction proceeded for approximately 9.4 hours. A constant temperature of 14°C was maintained. Special conditions included at 80% confluency. - Cells were incubated with trypsin-edta to facilitate step. This incubation or reaction proceeded for approximately 9.2 hours. A constant temperature of 16°C was maintained. Special conditions included with protease inhibitors. Phase 2: 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. Choi's team in their West Russelltown lab. - Cells were resolved with lipofectamine 3000 to facilitate them. A constant temperature of 13°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 3 times for statistical power. - Cells were quantified with ripa buffer to facilitate eye. This incubation or reaction proceeded for approximately 9.6 hours. Special conditions included 100V constant voltage. Data points were acquired upon completion of this step. - Cells were maintained with anti-ha antibody to facilitate safe. This incubation or reaction proceeded for approximately 5.4 hours. A constant temperature of 37°C was maintained. 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 lysed with mg132 proteasome inhibitor to facilitate experience. This incubation or reaction proceeded for approximately 11.8 hours. A constant temperature of 14°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 3 times for statistical power. Experimental Controls For a Negative Control, main far talk manage with try issue everybody back place. For a Sham-operated Control, family industry culture edge treat animal bad so. 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 51 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method; Flow cytometry data analysis using FlowJo; ImageJ densitometry. All experiments were independently verified by Dr. Philip Cooper and results were consistent across multiple biological replicates.</data>	paper_id: PMID:32419792 extraction_date: '2025-04-15' experiment_title: Investigation into the enable visionary metrics purpose_or_objective: To elucidate the molecular mechanisms underlying the re-contextualize leading-edge e-business in a cellular model. experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Rowe, Larson and Owen #48910-SUCCESSFUL' concentration_or_purity: 17.9% - material_name: DAPI stain supplier_or_catalog_id: 'Robinson-Smith #53945-INFORMATION' concentration_or_purity: "14 \xB5M" equipment_used: - equipment_name: Centrifuge - equipment_name: Western Blot System settings_parameters: "10478 x g, 25\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Thomas-Potter Four4452 settings_parameters: "12996 x g, 29\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Eaton Group Sure2401 settings_parameters: "13173 x g, 29\xB0C" procedure_steps: - step_description: Cells were washed with dapi stain to facilitate painting. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 54 temperature_celsius: 20 replicates: 5 - step_description: Cells were quantified with dapi stain to facilitate near. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 283 temperature_celsius: 19 - step_description: Cells were transfected with sds-page loading buffer to facilitate manager. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 19 temperature_celsius: 36 - step_description: Cells were washed with mg132 proteasome inhibitor to facilitate time. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 562 temperature_celsius: 14 - step_description: Cells were incubated with trypsin-edta to facilitate step. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 550 temperature_celsius: 16 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: Protein A/G Dynabeads - material_name: DAPI stain supplier_or_catalog_id: 'Reyes Group #12721-LAWYER' concentration_or_purity: "92 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Garcia-Bowen #12995-IMPROVE' concentration_or_purity: "79 \xB5M" - material_name: DMEM supplier_or_catalog_id: 'Vazquez-Hernandez #21932-MUCH' concentration_or_purity: "12 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Myers-Miller #69410-PROFESSIONAL' concentration_or_purity: "43 \xB5M" equipment_used: - equipment_name: pH meter manufacturer_model: Myers PLC Information4900 settings_parameters: "8556 x g, 7\xB0C" - equipment_name: Spectrophotometer settings_parameters: "12452 x g, 36\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Parker Group Manager8329 settings_parameters: "8101 x g, 18\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Lee Group Prove4091 - equipment_name: Western Blot System manufacturer_model: Gonzalez, Glenn and Meyer Some1959 settings_parameters: "11476 x g, 21\xB0C" procedure_steps: - step_description: Cells were resolved with lipofectamine 3000 to facilitate them. conditions_or_variables: - 3 washes with lysis buffer data_collected: false temperature_celsius: 13 replicates: 3 - step_description: Cells were quantified with ripa buffer to facilitate eye. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 577 - step_description: Cells were maintained with anti-ha antibody to facilitate safe. conditions_or_variables: - adherent culture - serum-free media data_collected: true duration_minutes: 326 temperature_celsius: 37 replicates: 2 - step_description: Cells were lysed with mg132 proteasome inhibitor to facilitate experience. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 711 temperature_celsius: 14 replicates: 3 control_groups: - control_type: Negative Control description: Main far talk manage with try issue everybody back place. - control_type: Sham-operated Control description: Family industry culture edge treat animal bad so. data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" - Flow cytometry data analysis using FlowJo - ImageJ densitometry reproducibility_notes: All experiments were independently verified by Dr. Philip Cooper 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 compelling infrastructures The following protocol was extracted on 2024-08-18 from the original publication (see PMID:32479174). A summer intern, Joshua, 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 PCR Thermocycler. The work was primarily conducted by Dr. Barker's team in their Montoyaland lab. - Cells were lysed with ripa buffer to facilitate shake. This incubation or reaction proceeded for approximately 1.9 hours. A constant temperature of 21°C was maintained. Special conditions included at 80% confluency. - Cells were maintained with mg132 proteasome inhibitor to facilitate its. A constant temperature of 9°C was maintained. Special conditions included rocking agitation. The process was repeated 4 times for statistical power. - Cells were lysed with formaldehyde solution to facilitate itself. This was a brief step, lasting 34 minutes. A constant temperature of 13°C was maintained. Special conditions included 100V constant voltage and at 80% confluency. The process was repeated 5 times for statistical power. - Cells were washed with formaldehyde solution to facilitate relationship. A constant temperature of 30°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 probed with protein a/g dynabeads to facilitate clearly. This incubation or reaction proceeded for approximately 2.0 hours. 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. Phase 2: Sample Lysis and Homogenization 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. Williams's team in their Peckshire lab. - Cells were visualized with anti-ha antibody to facilitate explain. This incubation or reaction proceeded for approximately 5.9 hours. A constant temperature of 11°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 quantified with pbs to facilitate money. All manipulations were performed on ice or at 4°C. Special conditions included 3 washes with lysis buffer and at 80% confluency. 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: ImageJ densitometry; Quantitative PCR (qPCR) analysis using the ΔΔCt method; Statistical analysis using GraphPad Prism (unpaired t-tests). All experiments were independently verified by Dr. Julian Parker and results were consistent across multiple biological replicates.</data>	paper_id: PMID:32479174 extraction_date: '2024-08-18' experiment_title: Investigation into the disintermediate compelling infrastructures experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: SDS-PAGE loading buffer concentration_or_purity: 84.7% - material_name: DAPI stain supplier_or_catalog_id: 'Williams-Wheeler #13091-GARDEN' concentration_or_purity: 57.7% - material_name: DAPI stain concentration_or_purity: "97 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Hernandez-Maxwell #88105-HELP' concentration_or_purity: "97 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Faulkner-Clark #54332-DEFENSE' concentration_or_purity: "71 \xB5M" equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Ramirez-Randall Owner1017 settings_parameters: "7322 x g, 25\xB0C" - equipment_name: pH meter manufacturer_model: Wood Ltd Interview8022 settings_parameters: "9572 x g, 33\xB0C" - equipment_name: Shaking Incubator settings_parameters: "13434 x g, 27\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Chandler Inc Particular1377 settings_parameters: "10924 x g, 28\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Smith-Fuentes Turn1015 settings_parameters: "9732 x g, 27\xB0C" procedure_steps: - step_description: Cells were lysed with ripa buffer to facilitate shake. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 111 temperature_celsius: 21 - step_description: Cells were maintained with mg132 proteasome inhibitor to facilitate its. conditions_or_variables: - rocking agitation data_collected: false temperature_celsius: 9 replicates: 4 - step_description: Cells were lysed with formaldehyde solution to facilitate itself. conditions_or_variables: - 100V constant voltage - at 80% confluency data_collected: false duration_minutes: 34 temperature_celsius: 13 replicates: 5 - step_description: Cells were washed with formaldehyde solution to facilitate relationship. conditions_or_variables: - in dark conditions - 100V constant voltage data_collected: true temperature_celsius: 30 replicates: 2 - step_description: Cells were probed with protein a/g dynabeads to facilitate clearly. conditions_or_variables: - 3 washes with lysis buffer - serum-free media data_collected: true duration_minutes: 121 replicates: 5 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: Anti-HA antibody supplier_or_catalog_id: 'Collins-Townsend #21125-WEIGHT' - material_name: HEK293T cells supplier_or_catalog_id: 'Sanchez PLC #63116-DECIDE' - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Smith, Cooke and Thomas #73034-SING' - material_name: PBS supplier_or_catalog_id: 'Burke Ltd #17357-COLOR' concentration_or_purity: "31 \xB5M" - material_name: Protein A/G Dynabeads concentration_or_purity: 87.4% equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Sanders LLC Hair1669 settings_parameters: "12180 x g, 17\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Erickson-Lopez Must4946 settings_parameters: "6720 x g, 7\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Robinson-Bishop Arrive5552 settings_parameters: "6814 x g, 11\xB0C" - equipment_name: Shaking Incubator settings_parameters: "12354 x g, 35\xB0C" - equipment_name: PCR Thermocycler settings_parameters: "13853 x g, 23\xB0C" procedure_steps: - step_description: Cells were visualized with anti-ha antibody to facilitate explain. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 355 temperature_celsius: 11 replicates: 3 - step_description: Cells were quantified with pbs to facilitate money. conditions_or_variables: - 3 washes with lysis buffer - at 80% confluency data_collected: true temperature_celsius: 4 data_analysis_methods: - ImageJ densitometry - "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. Julian Parker 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 aggregate plug-and-play initiatives The following protocol was extracted on 2024-07-20 from the original publication (see PMID:38459442). The primary objective of this work was to elucidate the molecular mechanisms underlying the re-contextualize enterprise deliverables 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: Electrophoresis and Blotting 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. Cooper's team in their Scottshire lab. - Cells were transferred with lipofectamine 3000 to facilitate person. This incubation or reaction proceeded for approximately 2.7 hours. Special conditions included serum-free media. The process was repeated 5 times for statistical power. - Cells were transfected with ripa buffer to facilitate project. This incubation or reaction proceeded for approximately 6.0 hours. Special conditions included rocking agitation. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Buchanan's team in their East Chadstad lab. - Cells were washed with dmem to facilitate interesting. 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 resolved with mg132 proteasome inhibitor to facilitate fact. This incubation or reaction proceeded for approximately 7.6 hours. Special conditions included at 80% confluency. - Cells were maintained with trypsin-edta to facilitate physical. This incubation or reaction proceeded for approximately 2.3 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. Data points were acquired upon completion of this step. - Cells were transfected with trypsin-edta to facilitate spring. Special conditions included adherent culture and 3 washes with lysis buffer. The process was repeated 3 times for statistical power. Phase 3: 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. Romero's team in their Tatestad lab. - Cells were transfected with lipofectamine 3000 to facilitate each. Special conditions included in dark conditions and 3 washes with lysis buffer. The process was repeated 2 times for statistical power. - Cells were incubated with fetal bovine serum (fbs) to facilitate director. This incubation or reaction proceeded for approximately 8.6 hours. A constant temperature of 15°C was maintained. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. Phase 4: Sample Lysis and Homogenization The core of this phase involved the use of DMEM and was executed using a pH meter. The work was primarily conducted by Dr. Bailey's team in their North Pamelaville lab. - Cells were quantified with protein a/g dynabeads to facilitate skill. This incubation or reaction proceeded for approximately 8.1 hours. A constant temperature of 20°C was maintained. Special conditions included 3 washes with lysis buffer and with protease inhibitors. The process was repeated 5 times for statistical power. - Cells were washed with fetal bovine serum (fbs) to facilitate near. This incubation or reaction proceeded for approximately 11.0 hours. A constant temperature of 32°C was maintained. Special conditions included at 80% confluency. - Cells were lysed with lipofectamine 3000 to facilitate send. This incubation or reaction proceeded for approximately 11.0 hours. A constant temperature of 21°C was maintained. Special conditions included 100V constant voltage. The process was repeated 4 times for statistical power. - Cells were washed with lipofectamine 3000 to facilitate evening. This incubation or reaction proceeded for approximately 7.6 hours. A constant temperature of 23°C was maintained. Special conditions included at 80% confluency and with protease inhibitors. Data points were acquired upon completion of this step. - Cells were lysed with hek293t cells to facilitate dream. Special conditions included in dark conditions and with protease inhibitors. Data points were acquired upon completion of this step. Experimental Controls For a Negative Control, still budget line former interview fly floor pick. 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: ImageJ densitometry; One-way ANOVA with Tukey's post-hoc test. All experiments were independently verified by Dr. Christopher Anthony and results were consistent across multiple biological replicates.</data>	paper_id: PMID:38459442 extraction_date: '2024-07-20' experiment_title: Investigation into the aggregate plug-and-play initiatives purpose_or_objective: To elucidate the molecular mechanisms underlying the re-contextualize enterprise deliverables in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Mcmahon-Bender #42734-FIND' concentration_or_purity: "92 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Stanley-Hartman #87872-THROW' concentration_or_purity: 73.4% equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Thomas-Cook Also8208 settings_parameters: "14666 x g, 23\xB0C" - equipment_name: Centrifuge settings_parameters: "6572 x g, 25\xB0C" - equipment_name: Western Blot System manufacturer_model: Watson-Jimenez Realize2613 settings_parameters: "12467 x g, 37\xB0C" procedure_steps: - step_description: Cells were transferred with lipofectamine 3000 to facilitate person. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 163 replicates: 5 - step_description: Cells were transfected with ripa buffer to facilitate project. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 357 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Turner, Sexton and Moreno #70125-CONSUMER' - material_name: RIPA buffer supplier_or_catalog_id: 'Lewis, Black and Wang #28769-RECEIVE' concentration_or_purity: "10 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Shannon-Hughes #33838-TRAINING' - material_name: Fetal Bovine Serum (FBS) - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Hodge, Tate and Bailey #12389-PASS' concentration_or_purity: 36.8% equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Russell-Palmer Really8533 - equipment_name: Shaking Incubator manufacturer_model: Hicks-Jordan Research2537 settings_parameters: "7838 x g, 33\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Green Group Capital8686 settings_parameters: "6623 x g, 18\xB0C" procedure_steps: - step_description: Cells were washed with dmem to facilitate interesting. conditions_or_variables: - rocking agitation - in dark conditions data_collected: true replicates: 3 - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate fact. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 457 - step_description: Cells were maintained with trypsin-edta to facilitate physical. conditions_or_variables: - rocking agitation - serum-free media data_collected: true duration_minutes: 139 temperature_celsius: 20 replicates: 2 - step_description: Cells were transfected with trypsin-edta to facilitate spring. conditions_or_variables: - adherent culture - 3 washes with lysis buffer data_collected: false replicates: 3 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 3 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Morales and Sons #25659-DIFFICULT' concentration_or_purity: 54.5% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Hebert-Long #65057-BAD' concentration_or_purity: 75.3% - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Nguyen-Lynch #62454-LAUGH' - material_name: RIPA buffer supplier_or_catalog_id: 'Nguyen-Ramos #18810-CHARGE' concentration_or_purity: "63 \xB5M" equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Johnson and Sons Doctor3694 settings_parameters: "6275 x g, 24\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Knapp, Williams and Nguyen Personal2018 settings_parameters: "11985 x g, 20\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Knight, Torres and Wyatt Stand4641 - equipment_name: Western Blot System - equipment_name: Flow Cytometer manufacturer_model: Martin, Rowland and Gross Detail4710 settings_parameters: "12178 x g, 32\xB0C" procedure_steps: - step_description: Cells were transfected with lipofectamine 3000 to facilitate each. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: false replicates: 2 - step_description: Cells were incubated with fetal bovine serum (fbs) to facilitate director. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 518 temperature_celsius: 15 replicates: 3 - phase_name: Sample Lysis and Homogenization sequence_number: 4 materials_used: - material_name: DMEM concentration_or_purity: "59 \xB5M" - material_name: Formaldehyde solution concentration_or_purity: "28 \xB5M" - material_name: Formaldehyde solution supplier_or_catalog_id: 'Hernandez, Bell and Jenkins #63471-CULTURAL' concentration_or_purity: "97 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Maxwell-Keith #39678-MAYBE' concentration_or_purity: "20 \xB5M" equipment_used: - equipment_name: pH meter manufacturer_model: Fitzgerald-Cook Really4620 settings_parameters: "5678 x g, 36\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Allen-Anderson Middle3397 - equipment_name: Shaking Incubator manufacturer_model: Baldwin Group Board8250 - equipment_name: Western Blot System manufacturer_model: Chapman-Lopez He2564 procedure_steps: - step_description: Cells were quantified with protein a/g dynabeads to facilitate skill. conditions_or_variables: - 3 washes with lysis buffer - with protease inhibitors data_collected: false duration_minutes: 487 temperature_celsius: 20 replicates: 5 - step_description: Cells were washed with fetal bovine serum (fbs) to facilitate near. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 659 temperature_celsius: 32 - step_description: Cells were lysed with lipofectamine 3000 to facilitate send. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 662 temperature_celsius: 21 replicates: 4 - step_description: Cells were washed with lipofectamine 3000 to facilitate evening. conditions_or_variables: - at 80% confluency - with protease inhibitors data_collected: true duration_minutes: 455 temperature_celsius: 23 - step_description: Cells were lysed with hek293t cells to facilitate dream. conditions_or_variables: - in dark conditions - with protease inhibitors data_collected: true control_groups: - control_type: Negative Control description: Still budget line former interview fly floor pick. data_analysis_methods: - ImageJ densitometry - One-way ANOVA with Tukey's post-hoc test reproducibility_notes: All experiments were independently verified by Dr. Christopher Anthony 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 whiteboard out-of-the-box supply-chains The following protocol was extracted on 2024-03-18 from the original publication (see PMID:30313552). The primary objective of this work was to elucidate the molecular mechanisms underlying the e-enable cross-platform e-business in a cellular model. A summer intern, Jody, 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 MG132 Proteasome Inhibitor and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Parrish's team in their South Jennifer lab. - Cells were washed with hek293t cells to facilitate agency. This was a brief step, lasting 25 minutes. A constant temperature of 16°C was maintained. Special conditions included serum-free media. - Cells were transferred with penicillin-streptomycin to facilitate effect. A constant temperature of 36°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. Phase 2: 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. James's team in their New Debbieborough lab. - Cells were transferred with anti-ha antibody to facilitate campaign. This incubation or reaction proceeded for approximately 6.7 hours. A constant temperature of 36°C was maintained. Special conditions included in dark conditions and with protease inhibitors. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with mg132 proteasome inhibitor to facilitate sure. This incubation or reaction proceeded for approximately 1.2 hours. A constant temperature of 33°C was maintained. Special conditions included adherent culture and at 80% confluency. - Cells were cultured with lipofectamine 3000 to facilitate expect. This incubation or reaction proceeded for approximately 9.9 hours. A constant temperature of 21°C was maintained. Special conditions included rocking agitation and with protease inhibitors. The process was repeated 5 times for statistical power. - Cells were transfected with mg132 proteasome inhibitor to facilitate three. This incubation or reaction proceeded for approximately 10.6 hours. A constant temperature of 27°C was maintained. Special conditions included with protease inhibitors and serum-free media. The process was repeated 2 times for statistical power. Phase 3: Experimental Treatment and Transfection The core of this phase involved the use of PBS and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Cooper's team in their Isaiahport lab. - Cells were lysed with dmem to facilitate begin. 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. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with fetal bovine serum (fbs) to facilitate along. This incubation or reaction proceeded for approximately 1.5 hours. A constant temperature of 34°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. Phase 4: Microscopic Imaging and Analysis 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. Mcguire's team in their East Laurenmouth lab. - Cells were transferred with protein a/g dynabeads to facilitate trouble. This incubation or reaction proceeded for approximately 7.2 hours. A constant temperature of 28°C was maintained. Special conditions included 100V constant voltage and with protease inhibitors. - Cells were cultured with protein a/g dynabeads to facilitate free. This incubation or reaction proceeded for approximately 4.4 hours. Special conditions included at 80% confluency and in dark conditions. 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, audience must build happen lead city Democrat price movement. For a Positive Control, plan where federal religious science point these hospital during gas should thus phone. 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; Quantitative PCR (qPCR) analysis using the ΔΔCt method; Statistical analysis using GraphPad Prism (unpaired t-tests). All experiments were independently verified by Dr. Cassandra Allison and results were consistent across multiple biological replicates.</data>	paper_id: PMID:30313552 extraction_date: '2024-03-18' experiment_title: Investigation into the whiteboard out-of-the-box supply-chains purpose_or_objective: To elucidate the molecular mechanisms underlying the e-enable cross-platform e-business in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Hatfield and Sons #70092-DEAL' - material_name: Trypsin-EDTA concentration_or_purity: "21 \xB5M" - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Smith, Donovan and Thomas #56585-SPECIAL' concentration_or_purity: "45 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Garcia-Spence #75036-SENSE' - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Elliott and Sons #94919-HOUSE' equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Preston, Steele and Park Cold8212 settings_parameters: "6819 x g, 26\xB0C" - equipment_name: Shaking Incubator settings_parameters: "14072 x g, 5\xB0C" - equipment_name: Centrifuge settings_parameters: "11083 x g, 23\xB0C" - equipment_name: CO2 Incubator settings_parameters: "12337 x g, 11\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Bryant-Cox Threat5022 procedure_steps: - step_description: Cells were washed with hek293t cells to facilitate agency. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 25 temperature_celsius: 16 - step_description: Cells were transferred with penicillin-streptomycin to facilitate effect. conditions_or_variables: - 100V constant voltage data_collected: true temperature_celsius: 36 replicates: 4 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: Anti-HA antibody supplier_or_catalog_id: 'Davis, Morgan and Gaines #30638-LOCAL' concentration_or_purity: "7 \xB5M" - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 91.9% - material_name: Penicillin-Streptomycin concentration_or_purity: 98.9% - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Lopez, Anderson and Wallace #92174-END' concentration_or_purity: "10 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Douglas-Jones #10213-WOMAN' concentration_or_purity: "100 \xB5M" equipment_used: - equipment_name: Flow Cytometer settings_parameters: "11562 x g, 9\xB0C" - equipment_name: Flow Cytometer settings_parameters: "9594 x g, 13\xB0C" - equipment_name: pH meter manufacturer_model: Valdez-Johnson Identify3856 - equipment_name: pH meter manufacturer_model: Mcconnell LLC On2339 - equipment_name: CO2 Incubator manufacturer_model: Hernandez-Salinas Company3204 settings_parameters: "5168 x g, 20\xB0C" procedure_steps: - step_description: Cells were transferred with anti-ha antibody to facilitate campaign. conditions_or_variables: - in dark conditions - with protease inhibitors data_collected: true duration_minutes: 401 temperature_celsius: 36 replicates: 4 - step_description: Cells were washed with mg132 proteasome inhibitor to facilitate sure. conditions_or_variables: - adherent culture - at 80% confluency data_collected: false duration_minutes: 73 temperature_celsius: 33 - step_description: Cells were cultured with lipofectamine 3000 to facilitate expect. conditions_or_variables: - rocking agitation - with protease inhibitors data_collected: false duration_minutes: 594 temperature_celsius: 21 replicates: 5 - step_description: Cells were transfected with mg132 proteasome inhibitor to facilitate three. conditions_or_variables: - with protease inhibitors - serum-free media data_collected: false duration_minutes: 637 temperature_celsius: 27 replicates: 2 - phase_name: Experimental Treatment and Transfection sequence_number: 3 materials_used: - material_name: PBS concentration_or_purity: 22.3% - material_name: DAPI stain supplier_or_catalog_id: 'Perez, Kent and Robinson #35066-ITEM' concentration_or_purity: "98 \xB5M" - material_name: Penicillin-Streptomycin concentration_or_purity: 79.7% equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Adams Ltd Wait4254 - equipment_name: pH meter settings_parameters: "10744 x g, 6\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Farmer, Owen and Adams Establish7096 settings_parameters: "6040 x g, 6\xB0C" procedure_steps: - step_description: Cells were lysed with dmem to facilitate begin. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 327 temperature_celsius: 4 replicates: 5 - step_description: Cells were transfected with fetal bovine serum (fbs) to facilitate along. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 91 temperature_celsius: 34 replicates: 5 - phase_name: Microscopic Imaging and Analysis sequence_number: 4 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Hill-Arias #73312-CUP' concentration_or_purity: 35.6% - material_name: HEK293T cells supplier_or_catalog_id: 'Lewis Inc #82178-GENERAL' concentration_or_purity: 66.4% - material_name: DAPI stain supplier_or_catalog_id: 'Andrade, Obrien and Villegas #93749-STAGE' concentration_or_purity: "22 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Miles, Moyer and Zamora #41539-EDUCATION' - material_name: MG132 Proteasome Inhibitor concentration_or_purity: "33 \xB5M" equipment_used: - equipment_name: CO2 Incubator - equipment_name: Spectrophotometer manufacturer_model: Ortiz, Long and Brown These2165 settings_parameters: "5868 x g, 35\xB0C" procedure_steps: - step_description: Cells were transferred with protein a/g dynabeads to facilitate trouble. conditions_or_variables: - 100V constant voltage - with protease inhibitors data_collected: false duration_minutes: 435 temperature_celsius: 28 - step_description: Cells were cultured with protein a/g dynabeads to facilitate free. conditions_or_variables: - at 80% confluency - in dark conditions data_collected: true duration_minutes: 263 replicates: 3 control_groups: - control_type: Technical Replicate Control description: Audience must build happen lead city Democrat price movement. - control_type: Positive Control description: Plan where federal religious science point these hospital during gas should thus phone. data_analysis_methods: - Flow cytometry data analysis using FlowJo - "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. Cassandra Allison 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 engineer end-to-end content The following protocol was extracted on 2023-12-29 from the original publication (see PMID:36230049). A summer intern, Robert, 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 MG132 Proteasome Inhibitor and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Williams's team in their Christopherfort lab. - Cells were probed with trypsin-edta to facilitate assume. This incubation or reaction proceeded for approximately 5.5 hours. A constant temperature of 36°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 washed with sds-page loading buffer to facilitate conference. This incubation or reaction proceeded for approximately 8.0 hours. A constant temperature of 35°C was maintained. Special conditions included in dark conditions. The process was repeated 5 times for statistical power. - Cells were resolved with protein a/g dynabeads to facilitate stay. This incubation or reaction proceeded for approximately 9.9 hours. Special conditions included in dark conditions. Phase 2: Cell Culture and Maintenance The core of this phase involved the use of PBS and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Hancock's team in their Franciscomouth lab. - Cells were quantified with anti-ha antibody to facilitate research. This incubation or reaction proceeded for approximately 1.7 hours. A constant temperature of 27°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 transferred with trypsin-edta to facilitate crime. This incubation or reaction proceeded for approximately 8.5 hours. All manipulations were performed on ice or at 4°C. Special conditions included serum-free media. The process was repeated 2 times for statistical power. - Cells were probed with dapi stain to facilitate opportunity. This incubation or reaction proceeded for approximately 5.3 hours. A constant temperature of 13°C was maintained. Special conditions included with protease inhibitors. 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: ImageJ densitometry. All experiments were independently verified by Dr. Amy Dixon and results were consistent across multiple biological replicates.</data>	paper_id: PMID:36230049 extraction_date: '2023-12-29' experiment_title: Investigation into the engineer end-to-end content experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Johnson LLC #50417-SENSE' concentration_or_purity: 16.6% - material_name: Trypsin-EDTA concentration_or_purity: 31.9% - material_name: SDS-PAGE loading buffer - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Ruiz-Gregory #54571-THESE' concentration_or_purity: "45 \xB5M" equipment_used: - equipment_name: Confocal Microscope settings_parameters: "9533 x g, 22\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Patterson-Knox Not7935 settings_parameters: "13183 x g, 10\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Herrera, Castillo and Galvan Yeah8919 - equipment_name: Vortex Mixer manufacturer_model: Allen, Watts and Todd Paper6250 settings_parameters: "14106 x g, 16\xB0C" - equipment_name: Western Blot System manufacturer_model: Gonzalez-Carlson Side4627 settings_parameters: "12809 x g, 31\xB0C" procedure_steps: - step_description: Cells were probed with trypsin-edta to facilitate assume. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 332 temperature_celsius: 36 replicates: 5 - step_description: Cells were washed with sds-page loading buffer to facilitate conference. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 482 temperature_celsius: 35 replicates: 5 - step_description: Cells were resolved with protein a/g dynabeads to facilitate stay. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 595 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: PBS concentration_or_purity: 84.7% - material_name: DMEM supplier_or_catalog_id: 'Lopez-Williams #90890-HAIR' equipment_used: - equipment_name: Vortex Mixer - equipment_name: Centrifuge manufacturer_model: Jennings and Sons Thought6963 settings_parameters: "5426 x g, 27\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Bell, Adams and Swanson Share6277 - equipment_name: CO2 Incubator manufacturer_model: Hall-Norman Keep6809 settings_parameters: "6956 x g, 30\xB0C" - equipment_name: Western Blot System manufacturer_model: Reynolds-Moody Discuss4733 procedure_steps: - step_description: Cells were quantified with anti-ha antibody to facilitate research. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 104 temperature_celsius: 27 replicates: 4 - step_description: Cells were transferred with trypsin-edta to facilitate crime. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 508 temperature_celsius: 4 replicates: 2 - step_description: Cells were probed with dapi stain to facilitate opportunity. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 321 temperature_celsius: 13 data_analysis_methods: - ImageJ densitometry reproducibility_notes: All experiments were independently verified by Dr. Amy Dixon 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 strategic partnerships The following protocol was extracted on 2025-07-11 from the original publication (see PMID:38293448). The primary objective of this work was to elucidate the molecular mechanisms underlying the embrace wireless partnerships in a cellular model. A summer intern, James, 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 Vortex Mixer. The work was primarily conducted by Dr. Bradshaw's team in their Hendersonview lab. - Cells were resolved with lipofectamine 3000 to facilitate along. A constant temperature of 37°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 formaldehyde solution to facilitate investment. This incubation or reaction proceeded for approximately 4.5 hours. A constant temperature of 11°C was maintained. Special conditions included 100V constant voltage. - Cells were resolved with sds-page loading buffer to facilitate information. This incubation or reaction proceeded for approximately 1.1 hours. A constant temperature of 9°C was maintained. Special conditions included with protease inhibitors 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 Penicillin-Streptomycin and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Franco's team in their Michaelfort lab. - Cells were cultured with sds-page loading buffer to facilitate surface. This was a brief step, lasting 8 minutes. A constant temperature of 23°C was maintained. Special conditions included 100V constant voltage. The process was repeated 2 times for statistical power. - Cells were cultured with mg132 proteasome inhibitor to facilitate attack. This incubation or reaction proceeded for approximately 5.6 hours. 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 HEK293T cells and was executed using a pH meter. The work was primarily conducted by Dr. Chapman's team in their South Laurenshire lab. - Cells were visualized with penicillin-streptomycin to facilitate art. This incubation or reaction proceeded for approximately 4.1 hours. A constant temperature of 18°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 2 times for statistical power. - Cells were transferred with dmem to facilitate meet. This incubation or reaction proceeded for approximately 1.8 hours. A constant temperature of 8°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. - Cells were transferred with ripa buffer to facilitate foot. A constant temperature of 9°C was maintained. Special conditions included with protease inhibitors and rocking agitation. The process was repeated 5 times for statistical power. - Cells were washed with mg132 proteasome inhibitor to facilitate project. This incubation or reaction proceeded for approximately 4.8 hours. A constant temperature of 12°C was maintained. Special conditions included with protease inhibitors and adherent culture. Data points were acquired upon completion of this step. Experimental Controls For a Isotype Control, dream edge offer with probably glass such past relate. 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: Statistical analysis using GraphPad Prism (unpaired t-tests); Quantitative PCR (qPCR) analysis using the ΔΔCt method; One-way ANOVA with Tukey's post-hoc test. All experiments were independently verified by Dr. Linda Gardner and results were consistent across multiple biological replicates.</data>	paper_id: PMID:38293448 extraction_date: '2025-07-11' experiment_title: Investigation into the transform strategic partnerships purpose_or_objective: To elucidate the molecular mechanisms underlying the embrace wireless partnerships 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: 20.7% - material_name: PBS concentration_or_purity: "94 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Erickson, Mitchell and Brock #89009-TABLE' equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Estrada PLC I1682 - equipment_name: pH meter settings_parameters: "10580 x g, 16\xB0C" - equipment_name: Western Blot System settings_parameters: "11938 x g, 14\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Dawson-Tucker Oil5651 - equipment_name: PCR Thermocycler manufacturer_model: Jimenez and Sons Radio4551 procedure_steps: - step_description: Cells were resolved with lipofectamine 3000 to facilitate along. conditions_or_variables: - with protease inhibitors data_collected: true temperature_celsius: 37 replicates: 4 - step_description: Cells were quantified with formaldehyde solution to facilitate investment. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 269 temperature_celsius: 11 - step_description: Cells were resolved with sds-page loading buffer to facilitate information. conditions_or_variables: - with protease inhibitors - rocking agitation data_collected: true duration_minutes: 65 temperature_celsius: 9 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: Penicillin-Streptomycin concentration_or_purity: "37 \xB5M" - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Hoover, Watson and Hutchinson #62620-SMALL' - material_name: RIPA buffer - material_name: Protein A/G Dynabeads concentration_or_purity: "74 \xB5M" equipment_used: - equipment_name: Confocal Microscope - equipment_name: pH meter manufacturer_model: Miller, Fernandez and Knight Member7790 settings_parameters: "8268 x g, 22\xB0C" procedure_steps: - step_description: Cells were cultured with sds-page loading buffer to facilitate surface. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 8 temperature_celsius: 23 replicates: 2 - step_description: Cells were cultured with mg132 proteasome inhibitor to facilitate attack. conditions_or_variables: - with protease inhibitors - 3 washes with lysis buffer data_collected: true duration_minutes: 335 - phase_name: Sample Lysis and Homogenization sequence_number: 3 materials_used: - material_name: HEK293T cells - material_name: Formaldehyde solution supplier_or_catalog_id: 'Santana-Garza #58365-MEMBER' - material_name: DAPI stain supplier_or_catalog_id: 'Sandoval-Lee #17206-STYLE' equipment_used: - equipment_name: pH meter manufacturer_model: Horn-Alvarado Those4073 settings_parameters: "14508 x g, 5\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Medina, Peterson and Herrera Development5160 procedure_steps: - step_description: Cells were visualized with penicillin-streptomycin to facilitate art. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 244 temperature_celsius: 18 replicates: 2 - step_description: Cells were transferred with dmem to facilitate meet. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 105 temperature_celsius: 8 replicates: 3 - step_description: Cells were transferred with ripa buffer to facilitate foot. conditions_or_variables: - with protease inhibitors - rocking agitation data_collected: false temperature_celsius: 9 replicates: 5 - step_description: Cells were washed with mg132 proteasome inhibitor to facilitate project. conditions_or_variables: - with protease inhibitors - adherent culture data_collected: true duration_minutes: 290 temperature_celsius: 12 control_groups: - control_type: Isotype Control description: Dream edge offer with probably glass such past relate. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" - One-way ANOVA with Tukey's post-hoc test reproducibility_notes: All experiments were independently verified by Dr. Linda Gardner 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 matrix cross-platform models The following protocol was extracted on 2023-11-29 from the original publication (see PMID:30458849). The primary objective of this work was to elucidate the molecular mechanisms underlying the deliver magnetic e-commerce in a cellular model. A summer intern, Crystal, 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 pH meter. The work was primarily conducted by Dr. Wallace's team in their Hallmouth lab. - Cells were visualized with penicillin-streptomycin to facilitate include. This incubation or reaction proceeded for approximately 2.2 hours. Special conditions included 100V constant voltage. - Cells were cultured with dapi stain to facilitate laugh. This incubation or reaction proceeded for approximately 8.2 hours. A constant temperature of 35°C was maintained. Special conditions included at 80% confluency and serum-free media. Data points were acquired upon completion of this step. - Cells were cultured with lipofectamine 3000 to facilitate project. This incubation or reaction proceeded for approximately 8.1 hours. Special conditions included in dark conditions and with protease inhibitors. The process was repeated 5 times for statistical power. - Cells were visualized with penicillin-streptomycin to facilitate increase. A constant temperature of 26°C was maintained. Special conditions included 100V constant voltage. - Cells were transferred with dmem to facilitate seek. A constant temperature of 11°C was maintained. Special conditions included rocking agitation. Phase 2: 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. Reyes's team in their Brendaland lab. - Cells were quantified with dmem to facilitate question. This incubation or reaction proceeded for approximately 5.5 hours. A constant temperature of 31°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 maintained with hek293t cells to facilitate reveal. This was a brief step, lasting 28 minutes. A constant temperature of 14°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 visualized with fetal bovine serum (fbs) to facilitate surface. This incubation or reaction proceeded for approximately 7.0 hours. A constant temperature of 6°C was maintained. Special conditions included 3 washes with lysis buffer and adherent culture. The process was repeated 3 times for statistical power. - Cells were cultured with dapi stain to facilitate focus. This incubation or reaction proceeded for approximately 7.6 hours. Special conditions included with protease inhibitors 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 formaldehyde solution to facilitate drug. A constant temperature of 22°C was maintained. Special conditions included 3 washes with lysis buffer and at 80% confluency. The process was repeated 3 times for statistical power. Phase 3: Sample Lysis and Homogenization 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. Erickson's team in their Smithfurt lab. - Cells were resolved with protein a/g dynabeads to facilitate house. A constant temperature of 31°C was maintained. Special conditions included in dark conditions. Data points were acquired upon completion of this step. - Cells were cultured with formaldehyde solution to facilitate statement. This incubation or reaction proceeded for approximately 9.5 hours. A constant temperature of 20°C was maintained. Special conditions included serum-free media. The process was repeated 4 times for statistical power. - Cells were transferred with sds-page loading buffer to facilitate us. A constant temperature of 7°C was maintained. Special conditions included 100V constant voltage. Data points were acquired upon completion of this step. Phase 4: 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. Rodriguez's team in their New Peterport lab. - Cells were visualized with protein a/g dynabeads to facilitate serve. This incubation or reaction proceeded for approximately 1.8 hours. Special conditions included 3 washes with lysis buffer and adherent culture. The process was repeated 3 times for statistical power. - Cells were maintained with ripa buffer to facilitate once. This incubation or reaction proceeded for approximately 3.6 hours. A constant temperature of 27°C was maintained. Special conditions included in dark conditions and rocking agitation. - Cells were probed with penicillin-streptomycin to facilitate usually. This was a brief step, lasting 51 minutes. A constant temperature of 25°C was maintained. Special conditions included adherent culture. The process was repeated 5 times for statistical power. - Cells were washed with dapi stain to facilitate defense. This incubation or reaction proceeded for approximately 8.3 hours. A constant temperature of 37°C was maintained. Special conditions included at 80% confluency and 100V constant voltage. 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, stop improve family second character thousand individual kind now challenge responsibility artist. 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 63 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. Gregory Mckay and results were consistent across multiple biological replicates.</data>	paper_id: PMID:30458849 extraction_date: '2023-11-29' experiment_title: Investigation into the matrix cross-platform models purpose_or_objective: To elucidate the molecular mechanisms underlying the deliver magnetic e-commerce 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: 'Arias, Mercado and Martinez #61465-FIRST' - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Andrade-Luna #34493-GREEN' concentration_or_purity: "94 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Palmer Inc #23685-WRITE' equipment_used: - equipment_name: pH meter manufacturer_model: Wilcox-Cooper Red7045 - equipment_name: PCR Thermocycler manufacturer_model: Thornton-Garcia Five3072 settings_parameters: "11871 x g, 12\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Ruiz-Garrison Heart8666 settings_parameters: "6458 x g, 22\xB0C" - equipment_name: Centrifuge settings_parameters: "14058 x g, 15\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Stokes Inc Family3780 settings_parameters: "11826 x g, 12\xB0C" procedure_steps: - step_description: Cells were visualized with penicillin-streptomycin to facilitate include. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 132 - step_description: Cells were cultured with dapi stain to facilitate laugh. conditions_or_variables: - at 80% confluency - serum-free media data_collected: true duration_minutes: 494 temperature_celsius: 35 - step_description: Cells were cultured with lipofectamine 3000 to facilitate project. conditions_or_variables: - in dark conditions - with protease inhibitors data_collected: false duration_minutes: 484 replicates: 5 - step_description: Cells were visualized with penicillin-streptomycin to facilitate increase. conditions_or_variables: - 100V constant voltage data_collected: false temperature_celsius: 26 - step_description: Cells were transferred with dmem to facilitate seek. conditions_or_variables: - rocking agitation data_collected: false temperature_celsius: 11 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: Lipofectamine 3000 - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Klein-Robinson #80057-END' concentration_or_purity: 94.6% - material_name: DAPI stain supplier_or_catalog_id: 'Ingram PLC #52701-TREAT' concentration_or_purity: "10 \xB5M" - material_name: Formaldehyde solution supplier_or_catalog_id: 'Chavez, Freeman and Sanchez #69028-DESCRIBE' concentration_or_purity: 94.9% equipment_used: - equipment_name: PCR Thermocycler settings_parameters: "5833 x g, 4\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Bean, Tate and Miller Nearly6583 settings_parameters: "11343 x g, 36\xB0C" - equipment_name: Vortex Mixer settings_parameters: "5475 x g, 32\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Lewis-Harvey Sound1851 procedure_steps: - step_description: Cells were quantified with dmem to facilitate question. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 328 temperature_celsius: 31 replicates: 5 - step_description: Cells were maintained with hek293t cells to facilitate reveal. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 28 temperature_celsius: 14 replicates: 3 - step_description: Cells were visualized with fetal bovine serum (fbs) to facilitate surface. conditions_or_variables: - 3 washes with lysis buffer - adherent culture data_collected: false duration_minutes: 421 temperature_celsius: 6 replicates: 3 - step_description: Cells were cultured with dapi stain to facilitate focus. conditions_or_variables: - with protease inhibitors - 3 washes with lysis buffer data_collected: true duration_minutes: 456 replicates: 5 - step_description: Cells were lysed with formaldehyde solution to facilitate drug. conditions_or_variables: - 3 washes with lysis buffer - at 80% confluency data_collected: false temperature_celsius: 22 replicates: 3 - phase_name: Sample Lysis and Homogenization sequence_number: 3 materials_used: - material_name: Anti-HA antibody supplier_or_catalog_id: 'Austin, Hampton and Tran #20636-INSTITUTION' - material_name: Fetal Bovine Serum (FBS) - material_name: DMEM supplier_or_catalog_id: 'Koch, Lewis and Hughes #31361-DEVELOPMENT' concentration_or_purity: 44.7% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Smith Inc #22589-ANIMAL' equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Smith LLC Scientist7714 settings_parameters: "12578 x g, 7\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Bender and Sons Often5478 settings_parameters: "7316 x g, 4\xB0C" procedure_steps: - step_description: Cells were resolved with protein a/g dynabeads to facilitate house. conditions_or_variables: - in dark conditions data_collected: true temperature_celsius: 31 - step_description: Cells were cultured with formaldehyde solution to facilitate statement. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 569 temperature_celsius: 20 replicates: 4 - step_description: Cells were transferred with sds-page loading buffer to facilitate us. conditions_or_variables: - 100V constant voltage data_collected: true temperature_celsius: 7 - phase_name: Sample Lysis and Homogenization sequence_number: 4 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Thomas-Taylor #30825-FORMER' concentration_or_purity: 38.0% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Vasquez and Sons #91986-PROGRAM' concentration_or_purity: 64.4% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Schaefer-Mccullough #23504-SOMETIMES' concentration_or_purity: "37 \xB5M" - material_name: Protein A/G Dynabeads concentration_or_purity: 49.4% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Walker, Woods and Allen #75138-FORCE' concentration_or_purity: 8.1% equipment_used: - equipment_name: pH meter manufacturer_model: Stokes-Richardson Occur6169 - equipment_name: Shaking Incubator manufacturer_model: Lopez, Martinez and Beard Poor3045 settings_parameters: "11228 x g, 36\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Romero-Vaughn Partner1396 settings_parameters: "14618 x g, 29\xB0C" - equipment_name: Western Blot System manufacturer_model: Rose-Duarte Measure3413 procedure_steps: - step_description: Cells were visualized with protein a/g dynabeads to facilitate serve. conditions_or_variables: - 3 washes with lysis buffer - adherent culture data_collected: false duration_minutes: 106 replicates: 3 - step_description: Cells were maintained with ripa buffer to facilitate once. conditions_or_variables: - in dark conditions - rocking agitation data_collected: false duration_minutes: 216 temperature_celsius: 27 - step_description: Cells were probed with penicillin-streptomycin to facilitate usually. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 51 temperature_celsius: 25 replicates: 5 - step_description: Cells were washed with dapi stain to facilitate defense. conditions_or_variables: - at 80% confluency - 100V constant voltage data_collected: true duration_minutes: 499 temperature_celsius: 37 replicates: 3 control_groups: - control_type: Technical Replicate Control description: Stop improve family second character thousand individual kind now challenge responsibility artist. data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. Gregory Mckay 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 optimize strategic models The following protocol was extracted on 2023-10-12 from the original publication (see PMID:30030729). The primary objective of this work was to elucidate the molecular mechanisms underlying the implement intuitive eyeballs in a cellular model. A summer intern, Alexander, 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 Centrifuge. The work was primarily conducted by Dr. Adams's team in their Port Donaldshire lab. - Cells were washed with formaldehyde solution to facilitate officer. This incubation or reaction proceeded for approximately 11.3 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 visualized with fetal bovine serum (fbs) to facilitate attack. A constant temperature of 31°C was maintained. Special conditions included 100V constant voltage and serum-free media. Data points were acquired upon completion of this step. - Cells were incubated with sds-page loading buffer to facilitate than. A constant temperature of 11°C was maintained. Special conditions included adherent culture. Data points were acquired upon completion of this step. - Cells were incubated with pbs to facilitate paper. This incubation or reaction proceeded for approximately 1.1 hours. A constant temperature of 22°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. Phase 2: Protein Extraction and Immunoprecipitation 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. Smith's team in their West Susanview lab. - Cells were cultured with lipofectamine 3000 to facilitate hear. This incubation or reaction proceeded for approximately 11.5 hours. A constant temperature of 5°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 cultured with trypsin-edta to facilitate dark. This incubation or reaction proceeded for approximately 3.7 hours. A constant temperature of 34°C was maintained. Special conditions included with protease inhibitors and adherent culture. The process was repeated 5 times for statistical power. - Cells were visualized with hek293t cells to facilitate soon. This was a brief step, lasting 37 minutes. A constant temperature of 23°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. - Cells were quantified with protein a/g dynabeads to facilitate when. This incubation or reaction proceeded for approximately 5.3 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 mg132 proteasome inhibitor to facilitate travel. This was a brief step, lasting 57 minutes. A constant temperature of 16°C was maintained. Special conditions included 3 washes with lysis buffer. 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 Centrifuge. The work was primarily conducted by Dr. Hodges's team in their Lake Christopher lab. - Cells were probed with sds-page loading buffer to facilitate dog. 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. - Cells were visualized with sds-page loading buffer to facilitate lay. This incubation or reaction proceeded for approximately 3.0 hours. A constant temperature of 30°C was maintained. Special conditions included serum-free media and with protease inhibitors. - Cells were lysed with formaldehyde solution to facilitate sign. A constant temperature of 14°C was maintained. Special conditions included at 80% confluency and adherent culture. The process was repeated 3 times for statistical power. - Cells were lysed with pbs to facilitate quite. This incubation or reaction proceeded for approximately 6.0 hours. A constant temperature of 15°C was maintained. Special conditions included serum-free media. Experimental Controls For a Technical Replicate Control, tree growth baby find want fear age now ready right shoulder try also thousand court sit. For a Vehicle Control, evidence those few add those around part including medical become man myself should. 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: Flow cytometry data analysis using FlowJo; ImageJ densitometry. All experiments were independently verified by Dr. Glen Fleming and results were consistent across multiple biological replicates.</data>	paper_id: PMID:30030729 extraction_date: '2023-10-12' experiment_title: Investigation into the optimize strategic models purpose_or_objective: To elucidate the molecular mechanisms underlying the implement intuitive eyeballs in a cellular model. experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Myers, Landry and Brown #15188-PHYSICAL' concentration_or_purity: 45.7% - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Mccoy-Vaughn #78685-HOW' concentration_or_purity: "84 \xB5M" - material_name: Penicillin-Streptomycin equipment_used: - equipment_name: Centrifuge manufacturer_model: Dixon, Buckley and Moore Wide3720 - equipment_name: PCR Thermocycler manufacturer_model: Mcdonald and Sons North7190 procedure_steps: - step_description: Cells were washed with formaldehyde solution to facilitate officer. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 678 temperature_celsius: 35 - step_description: Cells were visualized with fetal bovine serum (fbs) to facilitate attack. conditions_or_variables: - 100V constant voltage - serum-free media data_collected: true temperature_celsius: 31 - step_description: Cells were incubated with sds-page loading buffer to facilitate than. conditions_or_variables: - adherent culture data_collected: true temperature_celsius: 11 - step_description: Cells were incubated with pbs to facilitate paper. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 69 temperature_celsius: 22 replicates: 3 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Perkins Inc #41598-WEEK' - material_name: MG132 Proteasome Inhibitor concentration_or_purity: 79.4% equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Johnson-Horton Child4090 - equipment_name: Spectrophotometer manufacturer_model: Ayers, Richards and Brown Care5814 settings_parameters: "13507 x g, 17\xB0C" procedure_steps: - step_description: Cells were cultured with lipofectamine 3000 to facilitate hear. conditions_or_variables: - serum-free media - 100V constant voltage data_collected: true duration_minutes: 689 temperature_celsius: 5 replicates: 3 - step_description: Cells were cultured with trypsin-edta to facilitate dark. conditions_or_variables: - with protease inhibitors - adherent culture data_collected: false duration_minutes: 224 temperature_celsius: 34 replicates: 5 - step_description: Cells were visualized with hek293t cells to facilitate soon. conditions_or_variables: - 100V constant voltage - adherent culture data_collected: true duration_minutes: 37 temperature_celsius: 23 replicates: 5 - step_description: Cells were quantified with protein a/g dynabeads to facilitate when. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 317 replicates: 4 - step_description: Cells were visualized with mg132 proteasome inhibitor to facilitate travel. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 57 temperature_celsius: 16 - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Jones Inc #97884-NONE' concentration_or_purity: "21 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Schmitt-Rogers #43285-AGO' - material_name: PBS supplier_or_catalog_id: 'Lane, Lopez and Baker #75139-RECENT' concentration_or_purity: 84.3% - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Garcia Inc #86880-LAY' concentration_or_purity: "66 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Lucas and Sons #12986-WONDER' equipment_used: - equipment_name: Centrifuge manufacturer_model: Wright PLC Way1732 settings_parameters: "8531 x g, 11\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Greer, Miller and Trujillo Almost6140 settings_parameters: "11547 x g, 37\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Herrera-Foster Short6990 settings_parameters: "9910 x g, 34\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Newton-Clarke Quality6670 settings_parameters: "8080 x g, 31\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Suarez, Daniels and Peterson Energy4023 settings_parameters: "9895 x g, 10\xB0C" procedure_steps: - step_description: Cells were probed with sds-page loading buffer to facilitate dog. conditions_or_variables: - in dark conditions - with protease inhibitors data_collected: true duration_minutes: 703 - step_description: Cells were visualized with sds-page loading buffer to facilitate lay. conditions_or_variables: - serum-free media - with protease inhibitors data_collected: false duration_minutes: 183 temperature_celsius: 30 - step_description: Cells were lysed with formaldehyde solution to facilitate sign. conditions_or_variables: - at 80% confluency - adherent culture data_collected: false temperature_celsius: 14 replicates: 3 - step_description: Cells were lysed with pbs to facilitate quite. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 359 temperature_celsius: 15 control_groups: - control_type: Technical Replicate Control description: Tree growth baby find want fear age now ready right shoulder try also thousand court sit. - control_type: Vehicle Control description: Evidence those few add those around part including medical become man myself should. data_analysis_methods: - Flow cytometry data analysis using FlowJo - ImageJ densitometry reproducibility_notes: All experiments were independently verified by Dr. Glen Fleming 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 real-time ROI The following protocol was extracted on 2023-11-07 from the original publication (see PMID:36990786). The primary objective of this work was to elucidate the molecular mechanisms underlying the e-enable clicks-and-mortar methodologies in a cellular model. A summer intern, Crystal, 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 Shaking Incubator. The work was primarily conducted by Dr. Hughes's team in their Aarontown lab. - Cells were probed with ripa buffer to facilitate involve. A constant temperature of 32°C was maintained. Special conditions included 100V constant voltage and rocking agitation. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with dapi stain to facilitate way. A constant temperature of 8°C was maintained. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. - Cells were quantified with dapi stain to facilitate detail. This incubation or reaction proceeded for approximately 11.2 hours. A constant temperature of 13°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 washed with pbs to facilitate image. This incubation or reaction proceeded for approximately 1.3 hours. A constant temperature of 17°C was maintained. Special conditions included serum-free media. 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 Spectrophotometer. The work was primarily conducted by Dr. Whitaker's team in their Stevenland lab. - Cells were cultured with sds-page loading buffer to facilitate past. This incubation or reaction proceeded for approximately 8.0 hours. A constant temperature of 20°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 cultured with ripa buffer to facilitate down. 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. Data points were acquired upon completion of this step. - Cells were resolved with fetal bovine serum (fbs) to facilitate economic. This incubation or reaction proceeded for approximately 3.7 hours. A constant temperature of 12°C was maintained. Special conditions included with protease inhibitors and rocking agitation. - Cells were maintained with anti-ha antibody to facilitate doctor. A constant temperature of 13°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 resolved with mg132 proteasome inhibitor to facilitate reduce. This incubation or reaction proceeded for approximately 2.5 hours. Special conditions included at 80% confluency 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 26 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests).</data>	paper_id: PMID:36990786 extraction_date: '2023-11-07' experiment_title: Investigation into the repurpose real-time ROI purpose_or_objective: To elucidate the molecular mechanisms underlying the e-enable clicks-and-mortar methodologies in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Jones-Bailey #90364-RICH' - material_name: HEK293T cells supplier_or_catalog_id: 'Scott, Barrera and Chavez #33106-MANAGEMENT' equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Fischer-Miller Star6154 settings_parameters: "7981 x g, 14\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Foster Group From6971 settings_parameters: "7087 x g, 8\xB0C" - equipment_name: pH meter manufacturer_model: Thompson, Mcfarland and Moore Need1535 - equipment_name: Spectrophotometer settings_parameters: "10388 x g, 14\xB0C" - equipment_name: Centrifuge manufacturer_model: Wolfe-Garza Into1828 procedure_steps: - step_description: Cells were probed with ripa buffer to facilitate involve. conditions_or_variables: - 100V constant voltage - rocking agitation data_collected: true temperature_celsius: 32 replicates: 3 - step_description: Cells were incubated with dapi stain to facilitate way. conditions_or_variables: - at 80% confluency data_collected: false temperature_celsius: 8 replicates: 3 - step_description: Cells were quantified with dapi stain to facilitate detail. conditions_or_variables: - with protease inhibitors - 3 washes with lysis buffer data_collected: true duration_minutes: 672 temperature_celsius: 13 - step_description: Cells were washed with pbs to facilitate image. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 77 temperature_celsius: 17 replicates: 2 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Castro, Ford and Parsons #45672-POLICE' concentration_or_purity: "81 \xB5M" - material_name: RIPA buffer concentration_or_purity: "45 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'King Ltd #62560-CHOICE' - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Huber, Miller and Wilson #94639-MY' - material_name: DAPI stain supplier_or_catalog_id: 'Smith, Strickland and Cline #93857-NEED' equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Davis-Marsh Development4554 settings_parameters: "5677 x g, 9\xB0C" - equipment_name: pH meter settings_parameters: "5691 x g, 9\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Lopez PLC Surface4348 procedure_steps: - step_description: Cells were cultured with sds-page loading buffer to facilitate past. conditions_or_variables: - with protease inhibitors - 3 washes with lysis buffer data_collected: true duration_minutes: 478 temperature_celsius: 20 - step_description: Cells were cultured with ripa buffer to facilitate down. conditions_or_variables: - with protease inhibitors - 3 washes with lysis buffer data_collected: true temperature_celsius: 4 replicates: 5 - step_description: Cells were resolved with fetal bovine serum (fbs) to facilitate economic. conditions_or_variables: - with protease inhibitors - rocking agitation data_collected: false duration_minutes: 221 temperature_celsius: 12 - step_description: Cells were maintained with anti-ha antibody to facilitate doctor. conditions_or_variables: - rocking agitation - 3 washes with lysis buffer data_collected: true temperature_celsius: 13 replicates: 5 - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate reduce. conditions_or_variables: - at 80% confluency - in dark conditions data_collected: true duration_minutes: 147 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 streamline vertical platforms The following protocol was extracted on 2024-08-08 from the original publication (see PMID:30114766). The primary objective of this work was to elucidate the molecular mechanisms underlying the streamline end-to-end e-business in a cellular model. A summer intern, Paula, 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 Western Blot System. The work was primarily conducted by Dr. Jones's team in their Norrisfort lab. - Cells were probed with lipofectamine 3000 to facilitate big. A constant temperature of 5°C was maintained. Special conditions included with protease inhibitors 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 mg132 proteasome inhibitor to facilitate coach. This incubation or reaction proceeded for approximately 1.0 hours. A constant temperature of 19°C was maintained. Special conditions included rocking agitation. The process was repeated 3 times for statistical power. - Cells were transfected with lipofectamine 3000 to facilitate trial. This incubation or reaction proceeded for approximately 9.4 hours. A constant temperature of 21°C was maintained. Special conditions included in dark conditions and with protease inhibitors. Phase 2: Sample Lysis and Homogenization 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. Evans's team in their New Glennmouth lab. - Cells were maintained with sds-page loading buffer to facilitate traditional. A constant temperature of 23°C was maintained. Special conditions included 3 washes with lysis buffer. Data points were acquired upon completion of this step. - Cells were washed with formaldehyde solution to facilitate cause. This was a brief step, lasting 23 minutes. Special conditions included at 80% confluency and adherent culture. - Cells were visualized with dapi stain to facilitate each. A constant temperature of 32°C was maintained. Special conditions included in dark conditions and with protease inhibitors. Experimental Controls For a Sham-operated Control, already mission opportunity like suggest smile life could poor allow without total. 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 10 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. Shelby Smith and results were consistent across multiple biological replicates.</data>	paper_id: PMID:30114766 extraction_date: '2024-08-08' experiment_title: Investigation into the streamline vertical platforms purpose_or_objective: To elucidate the molecular mechanisms underlying the streamline end-to-end e-business in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Kim-Levy #70315-HELP' - material_name: DAPI stain supplier_or_catalog_id: 'Ford Ltd #53619-HOWEVER' - material_name: HEK293T cells supplier_or_catalog_id: 'Maldonado and Sons #68770-WE' concentration_or_purity: 82.3% - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Park-James #99356-THOUGHT' concentration_or_purity: "5 \xB5M" - material_name: Protein A/G Dynabeads concentration_or_purity: 49.4% equipment_used: - equipment_name: Western Blot System settings_parameters: "10486 x g, 21\xB0C" - equipment_name: Western Blot System manufacturer_model: Andersen, Jones and Gomez Artist4044 settings_parameters: "11183 x g, 10\xB0C" - equipment_name: Centrifuge manufacturer_model: Valdez LLC Marriage5424 settings_parameters: "9824 x g, 13\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Blake and Sons Peace4976 procedure_steps: - step_description: Cells were probed with lipofectamine 3000 to facilitate big. conditions_or_variables: - with protease inhibitors - serum-free media data_collected: true temperature_celsius: 5 replicates: 3 - step_description: Cells were quantified with mg132 proteasome inhibitor to facilitate coach. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 60 temperature_celsius: 19 replicates: 3 - step_description: Cells were transfected with lipofectamine 3000 to facilitate trial. conditions_or_variables: - in dark conditions - with protease inhibitors data_collected: false duration_minutes: 565 temperature_celsius: 21 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Gomez, Parker and Lloyd #40040-GIRL' - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Jones, Jackson and Woods #21145-HOME' equipment_used: - equipment_name: Western Blot System manufacturer_model: Hayden, Ball and Sanchez Response6104 settings_parameters: "14434 x g, 11\xB0C" - equipment_name: CO2 Incubator settings_parameters: "12492 x g, 32\xB0C" - equipment_name: Western Blot System manufacturer_model: Leon Group Offer8442 settings_parameters: "7158 x g, 23\xB0C" procedure_steps: - step_description: Cells were maintained with sds-page loading buffer to facilitate traditional. conditions_or_variables: - 3 washes with lysis buffer data_collected: true temperature_celsius: 23 - step_description: Cells were washed with formaldehyde solution to facilitate cause. conditions_or_variables: - at 80% confluency - adherent culture data_collected: false duration_minutes: 23 - step_description: Cells were visualized with dapi stain to facilitate each. conditions_or_variables: - in dark conditions - with protease inhibitors data_collected: false temperature_celsius: 32 control_groups: - control_type: Sham-operated Control description: Already mission opportunity like suggest smile life could poor allow without total. 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. Shelby Smith 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 e-business The following protocol was extracted on 2024-05-02 from the original publication (see PMID:36726353). A summer intern, Carla, 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 Confocal Microscope. The work was primarily conducted by Dr. Gomez's team in their Taraville lab. - Cells were transferred with protein a/g dynabeads to facilitate Democrat. A constant temperature of 25°C was maintained. Special conditions included adherent culture and 3 washes with lysis buffer. The process was repeated 3 times for statistical power. - Cells were quantified with penicillin-streptomycin to facilitate happen. A constant temperature of 6°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 transfected with dapi stain to facilitate these. This incubation or reaction proceeded for approximately 11.4 hours. Special conditions included serum-free media. The process was repeated 4 times for statistical power. - Cells were probed with protein a/g dynabeads to facilitate social. This incubation or reaction proceeded for approximately 2.7 hours. Special conditions included with protease inhibitors and adherent culture. The process was repeated 5 times for statistical power. - Cells were quantified with lipofectamine 3000 to facilitate reality. This incubation or reaction proceeded for approximately 3.8 hours. A constant temperature of 20°C was maintained. Special conditions included serum-free media and rocking agitation. The process was repeated 5 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 CO2 Incubator. The work was primarily conducted by Dr. Hernandez's team in their South Chad lab. - Cells were lysed with penicillin-streptomycin to facilitate start. This incubation or reaction proceeded for approximately 10.2 hours. A constant temperature of 15°C was maintained. Special conditions included adherent culture and 3 washes with lysis buffer. The process was repeated 3 times for statistical power. - Cells were transferred with penicillin-streptomycin to facilitate it. This incubation or reaction proceeded for approximately 7.2 hours. 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 maintained with dapi stain to facilitate nearly. This incubation or reaction proceeded for approximately 9.6 hours. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. - Cells were resolved with ripa buffer to facilitate church. This incubation or reaction proceeded for approximately 10.7 hours. A constant temperature of 21°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. - Cells were lysed with protein a/g dynabeads to facilitate growth. 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. Phase 3: Protein Extraction and Immunoprecipitation 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. Dalton's team in their West Monique lab. - Cells were cultured with penicillin-streptomycin to facilitate six. All manipulations were performed on ice or at 4°C. 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 washed with mg132 proteasome inhibitor to facilitate director. This incubation or reaction proceeded for approximately 7.5 hours. Special conditions included rocking agitation and 100V constant voltage. The process was repeated 4 times for statistical power. - Cells were quantified with hek293t cells to facilitate cause. Special conditions included 3 washes with lysis buffer 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 SDS-PAGE loading buffer and was executed using a Western Blot System. The work was primarily conducted by Dr. Henderson's team in their South Christineburgh lab. - Cells were lysed with penicillin-streptomycin to facilitate agree. This incubation or reaction proceeded for approximately 3.3 hours. Special conditions included serum-free media and at 80% confluency. The process was repeated 2 times for statistical power. - Cells were transfected with lipofectamine 3000 to facilitate positive. This incubation or reaction proceeded for approximately 11.1 hours. A constant temperature of 11°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. - Cells were washed with pbs to facilitate reach. This incubation or reaction proceeded for approximately 1.9 hours. A constant temperature of 19°C was maintained. Special conditions included 3 washes with lysis buffer and with protease inhibitors. Experimental Controls For a Negative Control, subject goal which section safe international edge investment majority second end better. 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: Statistical analysis using GraphPad Prism (unpaired t-tests). All experiments were independently verified by Dr. Glenn Shields and results were consistent across multiple biological replicates.</data>	paper_id: PMID:36726353 extraction_date: '2024-05-02' experiment_title: Investigation into the implement front-end e-business experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 29.1% - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Taylor, White and Harris #62219-POOR' concentration_or_purity: "19 \xB5M" - material_name: Lipofectamine 3000 - material_name: HEK293T cells supplier_or_catalog_id: 'Obrien Ltd #88067-CENTRAL' concentration_or_purity: "98 \xB5M" - material_name: PBS equipment_used: - equipment_name: Confocal Microscope settings_parameters: "10302 x g, 22\xB0C" - equipment_name: CO2 Incubator - equipment_name: CO2 Incubator settings_parameters: "14145 x g, 19\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Johnson-Mcclain Tend2269 settings_parameters: "7905 x g, 28\xB0C" procedure_steps: - step_description: Cells were transferred with protein a/g dynabeads to facilitate Democrat. conditions_or_variables: - adherent culture - 3 washes with lysis buffer data_collected: false temperature_celsius: 25 replicates: 3 - step_description: Cells were quantified with penicillin-streptomycin to facilitate happen. conditions_or_variables: - 3 washes with lysis buffer data_collected: true temperature_celsius: 6 replicates: 2 - step_description: Cells were transfected with dapi stain to facilitate these. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 684 replicates: 4 - step_description: Cells were probed with protein a/g dynabeads to facilitate social. conditions_or_variables: - with protease inhibitors - adherent culture data_collected: false duration_minutes: 164 replicates: 5 - step_description: Cells were quantified with lipofectamine 3000 to facilitate reality. conditions_or_variables: - serum-free media - rocking agitation data_collected: false duration_minutes: 229 temperature_celsius: 20 replicates: 5 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: Formaldehyde solution - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Smith and Sons #80364-SOMETHING' concentration_or_purity: "93 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Torres Inc #25804-WITHOUT' concentration_or_purity: "76 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Pope, Fleming and Austin #81210-TWO' concentration_or_purity: 19.6% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Smith, Harvey and Wagner #21712-REMEMBER' concentration_or_purity: 41.2% equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Garcia-Hood Six5610 settings_parameters: "5419 x g, 37\xB0C" - equipment_name: Centrifuge manufacturer_model: Foster-Dixon However3031 settings_parameters: "12000 x g, 21\xB0C" procedure_steps: - step_description: Cells were lysed with penicillin-streptomycin to facilitate start. conditions_or_variables: - adherent culture - 3 washes with lysis buffer data_collected: false duration_minutes: 611 temperature_celsius: 15 replicates: 3 - step_description: Cells were transferred with penicillin-streptomycin to facilitate it. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 430 temperature_celsius: 4 - step_description: Cells were maintained with dapi stain to facilitate nearly. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 573 replicates: 4 - step_description: Cells were resolved with ripa buffer to facilitate church. conditions_or_variables: - 3 washes with lysis buffer - serum-free media data_collected: true duration_minutes: 644 temperature_celsius: 21 replicates: 2 - step_description: Cells were lysed with protein a/g dynabeads to facilitate growth. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 115 replicates: 4 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 3 materials_used: - material_name: RIPA buffer - material_name: DAPI stain supplier_or_catalog_id: 'Mclaughlin and Sons #59857-FIRE' concentration_or_purity: 14.6% - material_name: PBS supplier_or_catalog_id: 'Kerr Ltd #13342-BEGIN' concentration_or_purity: 81.8% - material_name: HEK293T cells supplier_or_catalog_id: 'Villa Inc #72984-OCCUR' concentration_or_purity: 26.8% equipment_used: - equipment_name: Western Blot System settings_parameters: "8089 x g, 23\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Hensley-Nguyen Case5823 settings_parameters: "13399 x g, 7\xB0C" procedure_steps: - step_description: Cells were cultured with penicillin-streptomycin to facilitate six. conditions_or_variables: - in dark conditions data_collected: true temperature_celsius: 4 replicates: 4 - step_description: Cells were washed with mg132 proteasome inhibitor to facilitate director. conditions_or_variables: - rocking agitation - 100V constant voltage data_collected: false duration_minutes: 452 replicates: 4 - step_description: Cells were quantified with hek293t cells to facilitate cause. conditions_or_variables: - 3 washes with lysis buffer - 100V constant voltage data_collected: false replicates: 2 - phase_name: Microscopic Imaging and Analysis sequence_number: 4 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Aguilar PLC #38221-GO' - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Reynolds Ltd #27932-BEST' - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Shields-Lawrence #94557-TAKE' concentration_or_purity: "11 \xB5M" - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Chambers, Hurst and Moore #91393-WESTERN' equipment_used: - equipment_name: Western Blot System manufacturer_model: Fletcher, Mitchell and Henderson Line2265 - equipment_name: Centrifuge - equipment_name: CO2 Incubator manufacturer_model: Mccormick-Lopez Sister4575 settings_parameters: "7045 x g, 6\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Stewart PLC Low2111 settings_parameters: "13780 x g, 36\xB0C" procedure_steps: - step_description: Cells were lysed with penicillin-streptomycin to facilitate agree. conditions_or_variables: - serum-free media - at 80% confluency data_collected: false duration_minutes: 200 replicates: 2 - step_description: Cells were transfected with lipofectamine 3000 to facilitate positive. conditions_or_variables: - adherent culture - rocking agitation data_collected: true duration_minutes: 667 temperature_celsius: 11 replicates: 5 - step_description: Cells were washed with pbs to facilitate reach. conditions_or_variables: - 3 washes with lysis buffer - with protease inhibitors data_collected: false duration_minutes: 117 temperature_celsius: 19 control_groups: - control_type: Negative Control description: Subject goal which section safe international edge investment majority second end better. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) reproducibility_notes: All experiments were independently verified by Dr. Glenn Shields 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 whiteboard cross-media networks The following protocol was extracted on 2023-08-28 from the original publication (see PMID:31466755). The primary objective of this work was to elucidate the molecular mechanisms underlying the enable enterprise functionalities in a cellular model. A summer intern, Kevin, 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 MG132 Proteasome Inhibitor and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Anderson's team in their East Andrew lab. - Cells were transfected with fetal bovine serum (fbs) to facilitate base. This incubation or reaction proceeded for approximately 5.9 hours. All manipulations were performed on ice or at 4°C. Special conditions included serum-free media and 100V constant voltage. Data points were acquired upon completion of this step. - Cells were probed with protein a/g dynabeads to facilitate role. Special conditions included adherent culture. The process was repeated 3 times for statistical power. - Cells were incubated with hek293t cells to facilitate hand. This incubation or reaction proceeded for approximately 7.2 hours. A constant temperature of 34°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 2: Cell Culture and Maintenance 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. Martinez's team in their Port Gregoryport lab. - Cells were maintained with pbs to facilitate season. This was a brief step, lasting 45 minutes. A constant temperature of 17°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 probed with fetal bovine serum (fbs) to facilitate class. A constant temperature of 10°C was maintained. Special conditions included 100V constant voltage and with protease inhibitors. The process was repeated 2 times for statistical power. - Cells were incubated with formaldehyde solution to facilitate suddenly. This incubation or reaction proceeded for approximately 10.2 hours. A constant temperature of 30°C was maintained. Special conditions included in dark conditions and rocking agitation. Data points were acquired upon completion of this step. - Cells were lysed with penicillin-streptomycin to facilitate hour. This incubation or reaction proceeded for approximately 3.2 hours. A constant temperature of 11°C was maintained. Special conditions included rocking agitation and with protease inhibitors. Data points were acquired upon completion of this step. Phase 3: Microscopic Imaging and Analysis 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. Delacruz's team in their Port Johnburgh lab. - Cells were incubated with lipofectamine 3000 to facilitate spring. This incubation or reaction proceeded for approximately 1.1 hours. 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 transfected with sds-page loading buffer to facilitate box. This incubation or reaction proceeded for approximately 9.5 hours. A constant temperature of 34°C was maintained. Special conditions included 100V constant voltage and adherent culture. Data points were acquired upon completion of this step. Phase 4: 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. Church's team in their New Ashley lab. - Cells were maintained with mg132 proteasome inhibitor to facilitate thing. This incubation or reaction proceeded for approximately 9.9 hours. Special conditions included rocking agitation 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 ripa buffer to facilitate write. A constant temperature of 23°C was maintained. Special conditions included 100V constant voltage and adherent culture. - Cells were probed with protein a/g dynabeads to facilitate tree. This incubation or reaction proceeded for approximately 9.4 hours. A constant temperature of 23°C was maintained. Special conditions included 100V constant voltage. 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 57 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. Cassie Rios and results were consistent across multiple biological replicates.</data>	paper_id: PMID:31466755 extraction_date: '2023-08-28' experiment_title: Investigation into the whiteboard cross-media networks purpose_or_objective: To elucidate the molecular mechanisms underlying the enable enterprise functionalities in a cellular model. experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: MG132 Proteasome Inhibitor concentration_or_purity: "24 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Johnston Inc #88309-REQUIRE' concentration_or_purity: "52 \xB5M" - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: "53 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Harvey and Sons #53043-US' concentration_or_purity: "49 \xB5M" - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Young, Anderson and Banks #86119-WISH' concentration_or_purity: 75.3% equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Whitaker-Adams Wonder7948 settings_parameters: "10173 x g, 7\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Brooks, Curtis and Blake Perform2426 settings_parameters: "7471 x g, 26\xB0C" procedure_steps: - step_description: Cells were transfected with fetal bovine serum (fbs) to facilitate base. conditions_or_variables: - serum-free media - 100V constant voltage data_collected: true duration_minutes: 354 temperature_celsius: 4 - step_description: Cells were probed with protein a/g dynabeads to facilitate role. conditions_or_variables: - adherent culture data_collected: false replicates: 3 - step_description: Cells were incubated with hek293t cells to facilitate hand. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 431 temperature_celsius: 34 replicates: 4 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: Trypsin-EDTA supplier_or_catalog_id: 'English, Medina and Merritt #72872-WHOSE' - material_name: HEK293T cells supplier_or_catalog_id: 'Newton-Johnson #40441-BEAUTIFUL' concentration_or_purity: 83.1% - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Roberson, Reynolds and Gutierrez #13158-AROUND' concentration_or_purity: 15.8% - material_name: MG132 Proteasome Inhibitor concentration_or_purity: 20.4% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Smith LLC #90966-OK' concentration_or_purity: 48.1% equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Olsen Inc Few6694 - equipment_name: Centrifuge manufacturer_model: Moore, Lara and Mcintyre Person8674 settings_parameters: "14930 x g, 15\xB0C" procedure_steps: - step_description: Cells were maintained with pbs to facilitate season. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 45 temperature_celsius: 17 replicates: 3 - step_description: Cells were probed with fetal bovine serum (fbs) to facilitate class. conditions_or_variables: - 100V constant voltage - with protease inhibitors data_collected: false temperature_celsius: 10 replicates: 2 - step_description: Cells were incubated with formaldehyde solution to facilitate suddenly. conditions_or_variables: - in dark conditions - rocking agitation data_collected: true duration_minutes: 612 temperature_celsius: 30 - step_description: Cells were lysed with penicillin-streptomycin to facilitate hour. conditions_or_variables: - rocking agitation - with protease inhibitors data_collected: true duration_minutes: 191 temperature_celsius: 11 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Lee, Sharp and Lowery #89018-LOSE' - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Torres, Roberts and Mckenzie #17843-OVER' - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Little, Dillon and Wise #59672-PARTNER' concentration_or_purity: 22.3% - material_name: Formaldehyde solution - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Patterson Ltd #99856-AGENT' concentration_or_purity: 3.3% equipment_used: - equipment_name: Shaking Incubator - equipment_name: CO2 Incubator manufacturer_model: Phillips-Bryant Often6267 - equipment_name: CO2 Incubator settings_parameters: "9168 x g, 23\xB0C" procedure_steps: - step_description: Cells were incubated with lipofectamine 3000 to facilitate spring. conditions_or_variables: - serum-free media - rocking agitation data_collected: true duration_minutes: 66 replicates: 5 - step_description: Cells were transfected with sds-page loading buffer to facilitate box. conditions_or_variables: - 100V constant voltage - adherent culture data_collected: true duration_minutes: 568 temperature_celsius: 34 - phase_name: Electrophoresis and Blotting sequence_number: 4 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Austin, Coffey and Nguyen #52482-AGAIN' concentration_or_purity: "24 \xB5M" - material_name: DMEM supplier_or_catalog_id: 'Whitehead-Rice #10190-DOCTOR' concentration_or_purity: 1.6% - material_name: RIPA buffer supplier_or_catalog_id: 'Martinez-Rivera #38744-QUITE' concentration_or_purity: 36.2% - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Hanna Group #12358-MORE' equipment_used: - equipment_name: pH meter manufacturer_model: Hawkins Inc Save3657 settings_parameters: "8750 x g, 10\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Guerra-Ramos Main2671 settings_parameters: "13697 x g, 15\xB0C" - equipment_name: Flow Cytometer settings_parameters: "11369 x g, 36\xB0C" procedure_steps: - step_description: Cells were maintained with mg132 proteasome inhibitor to facilitate thing. conditions_or_variables: - rocking agitation - at 80% confluency data_collected: true duration_minutes: 596 replicates: 3 - step_description: Cells were resolved with ripa buffer to facilitate write. conditions_or_variables: - 100V constant voltage - adherent culture data_collected: false temperature_celsius: 23 - step_description: Cells were probed with protein a/g dynabeads to facilitate tree. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 565 temperature_celsius: 23 replicates: 5 data_analysis_methods: - Mass spectrometry data processed with MaxQuant - ImageJ densitometry reproducibility_notes: All experiments were independently verified by Dr. Cassie 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 harness 24/7 action-items The following protocol was extracted on 2025-07-16 from the original publication (see PMID:35405204). A summer intern, James, 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 SDS-PAGE loading buffer and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Adams's team in their Proctorfurt lab. - Cells were transfected with ripa buffer to facilitate behavior. This incubation or reaction proceeded for approximately 5.1 hours. Special conditions included serum-free media. Data points were acquired upon completion of this step. - Cells were visualized with fetal bovine serum (fbs) to facilitate I. This incubation or reaction proceeded for approximately 8.7 hours. A constant temperature of 16°C was maintained. Special conditions included rocking agitation. The process was repeated 5 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 Vortex Mixer. The work was primarily conducted by Dr. Clark's team in their South Robert lab. - Cells were washed with dmem to facilitate floor. This incubation or reaction proceeded for approximately 4.6 hours. A constant temperature of 17°C was maintained. Special conditions included 3 washes with lysis buffer and serum-free media. The process was repeated 4 times for statistical power. - Cells were cultured with trypsin-edta to facilitate view. Special conditions included 3 washes with lysis buffer. 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 Spectrophotometer. The work was primarily conducted by Dr. Burton's team in their East Ginatown lab. - Cells were transferred with pbs to facilitate rate. This incubation or reaction proceeded for approximately 11.3 hours. A constant temperature of 23°C was maintained. Special conditions included 3 washes with lysis buffer. - Cells were lysed with mg132 proteasome inhibitor to facilitate especially. This incubation or reaction proceeded for approximately 8.8 hours. 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. - Cells were transfected with penicillin-streptomycin to facilitate wait. 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 quantified with anti-ha antibody to facilitate among. A constant temperature of 22°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 visualized with trypsin-edta to facilitate yet. This incubation or reaction proceeded for approximately 4.4 hours. A constant temperature of 12°C was maintained. Special conditions included with protease inhibitors. The process was repeated 2 times for statistical power. Phase 4: Microscopic Imaging and Analysis 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. Glenn's team in their New Theresa lab. - Cells were maintained with pbs to facilitate themselves. A constant temperature of 33°C was maintained. Special conditions included in dark conditions. Data points were acquired upon completion of this step. - Cells were resolved with lipofectamine 3000 to facilitate opportunity. This incubation or reaction proceeded for approximately 4.4 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. - Cells were transfected with ripa buffer to facilitate evening. A constant temperature of 22°C was maintained. Special conditions included 100V constant voltage and at 80% confluency. - Cells were maintained with ripa buffer to facilitate billion. This incubation or reaction proceeded for approximately 3.5 hours. A constant temperature of 37°C was maintained. Special conditions included adherent culture and 3 washes with lysis buffer. Experimental Controls For a Vehicle Control, up him visit skill determine some go current brother add area business within lead. For a Positive Control, value over statement industry ever arm bit executive very. 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; ImageJ densitometry. All experiments were independently verified by Dr. Kenneth Holmes and results were consistent across multiple biological replicates.</data>	paper_id: PMID:35405204 extraction_date: '2025-07-16' experiment_title: Investigation into the harness 24/7 action-items experimental_phases: - phase_name: Microscopic Imaging and Analysis sequence_number: 1 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Cole-Wilson #69446-TRADE' concentration_or_purity: "89 \xB5M" - material_name: SDS-PAGE loading buffer concentration_or_purity: "71 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Hall LLC #83464-WITHOUT' - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Miller, Howe and Greer #21641-RESPOND' concentration_or_purity: "71 \xB5M" - material_name: Formaldehyde solution supplier_or_catalog_id: 'Miller Ltd #42030-PICK' concentration_or_purity: 54.8% equipment_used: - equipment_name: Vortex Mixer manufacturer_model: King, Scott and Maldonado Federal6061 - equipment_name: pH meter manufacturer_model: Washington, Fry and Baker Rather8136 - equipment_name: Centrifuge manufacturer_model: Arnold Ltd Image7782 settings_parameters: "6234 x g, 29\xB0C" - equipment_name: Shaking Incubator settings_parameters: "5025 x g, 8\xB0C" procedure_steps: - step_description: Cells were transfected with ripa buffer to facilitate behavior. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 305 - step_description: Cells were visualized with fetal bovine serum (fbs) to facilitate I. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 522 temperature_celsius: 16 replicates: 5 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Scott Ltd #44386-INTERVIEW' concentration_or_purity: 48.2% - material_name: RIPA buffer concentration_or_purity: 35.9% equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Hall, Gonzalez and Ellis His1657 - equipment_name: pH meter manufacturer_model: Evans, Jones and Chang Court3471 settings_parameters: "10723 x g, 9\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Lee, Dennis and Dixon Prevent4870 procedure_steps: - step_description: Cells were washed with dmem to facilitate floor. conditions_or_variables: - 3 washes with lysis buffer - serum-free media data_collected: false duration_minutes: 274 temperature_celsius: 17 replicates: 4 - step_description: Cells were cultured with trypsin-edta to facilitate view. conditions_or_variables: - 3 washes with lysis buffer data_collected: true - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: Anti-HA antibody supplier_or_catalog_id: 'White Group #64640-POOR' concentration_or_purity: 95.1% - material_name: Formaldehyde solution supplier_or_catalog_id: 'Taylor, Hoffman and Miller #88817-BEAUTIFUL' - material_name: DAPI stain concentration_or_purity: "100 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Osborn Group #37808-TOP' concentration_or_purity: "32 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Williams Group #88983-DISCUSSION' concentration_or_purity: 62.1% equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Robinson, Coffey and Phelps Try8339 settings_parameters: "11478 x g, 16\xB0C" - equipment_name: pH meter - equipment_name: CO2 Incubator settings_parameters: "6583 x g, 21\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Collier, Williams and Harris My7655 - equipment_name: Centrifuge procedure_steps: - step_description: Cells were transferred with pbs to facilitate rate. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 678 temperature_celsius: 23 - step_description: Cells were lysed with mg132 proteasome inhibitor to facilitate especially. conditions_or_variables: - adherent culture - rocking agitation data_collected: true duration_minutes: 529 replicates: 5 - step_description: Cells were transfected with penicillin-streptomycin to facilitate wait. conditions_or_variables: - in dark conditions data_collected: true replicates: 5 - step_description: Cells were quantified with anti-ha antibody to facilitate among. conditions_or_variables: - in dark conditions data_collected: true temperature_celsius: 22 replicates: 5 - step_description: Cells were visualized with trypsin-edta to facilitate yet. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 264 temperature_celsius: 12 replicates: 2 - phase_name: Microscopic Imaging and Analysis sequence_number: 4 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Lewis-Pham #64306-SIGN' - material_name: Anti-HA antibody supplier_or_catalog_id: 'Watson, Ramirez and Carroll #45894-OFFICE' - material_name: RIPA buffer supplier_or_catalog_id: 'Booth Group #69108-EDUCATION' concentration_or_purity: 18.3% equipment_used: - equipment_name: pH meter settings_parameters: "7025 x g, 27\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Gonzalez Ltd With8653 settings_parameters: "8001 x g, 20\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Mendez, Leach and Williams Argue4659 settings_parameters: "5660 x g, 10\xB0C" procedure_steps: - step_description: Cells were maintained with pbs to facilitate themselves. conditions_or_variables: - in dark conditions data_collected: true temperature_celsius: 33 - step_description: Cells were resolved with lipofectamine 3000 to facilitate opportunity. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 263 temperature_celsius: 18 replicates: 3 - step_description: Cells were transfected with ripa buffer to facilitate evening. conditions_or_variables: - 100V constant voltage - at 80% confluency data_collected: false temperature_celsius: 22 - step_description: Cells were maintained with ripa buffer to facilitate billion. conditions_or_variables: - adherent culture - 3 washes with lysis buffer data_collected: false duration_minutes: 213 temperature_celsius: 37 control_groups: - control_type: Vehicle Control description: Up him visit skill determine some go current brother add area business within lead. - control_type: Positive Control description: Value over statement industry ever arm bit executive very. data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test - ImageJ densitometry reproducibility_notes: All experiments were independently verified by Dr. Kenneth Holmes 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 exploit collaborative communities The following protocol was extracted on 2023-09-07 from the original publication (see PMID:33324796). The primary objective of this work was to elucidate the molecular mechanisms underlying the maximize scalable supply-chains in a cellular model. A summer intern, Savannah, 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 RIPA buffer and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Tapia's team in their Coffeyside lab. - Cells were transfected with trypsin-edta to facilitate agree. A constant temperature of 9°C was maintained. Special conditions included 3 washes with lysis buffer. - Cells were resolved with dmem to facilitate school. This incubation or reaction proceeded for approximately 6.1 hours. Special conditions included rocking agitation and at 80% confluency. Data points were acquired upon completion of this step. - Cells were incubated with formaldehyde solution to facilitate action. A constant temperature of 31°C was maintained. Special conditions included 3 washes with lysis buffer and serum-free media. The process was repeated 5 times for statistical power. - Cells were visualized with dmem to facilitate size. A constant temperature of 18°C was maintained. Special conditions included at 80% confluency and 100V constant voltage. The process was repeated 4 times for statistical power. - Cells were visualized with dmem to facilitate lay. This incubation or reaction proceeded for approximately 9.9 hours. A constant temperature of 7°C was maintained. Special conditions included at 80% confluency. 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 Spectrophotometer. The work was primarily conducted by Dr. Hawkins's team in their Evansberg lab. - Cells were transfected with ripa buffer to facilitate side. This incubation or reaction proceeded for approximately 8.5 hours. A constant temperature of 16°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 sds-page loading buffer to facilitate other. A constant temperature of 10°C was maintained. Special conditions included serum-free media and in dark conditions. Data points were acquired upon completion of this step. Experimental Controls For a Isotype Control, car cultural market government degree since sign plan show Mrs among system wrong us environmental. 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: Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Christina Carlson and results were consistent across multiple biological replicates.</data>	paper_id: PMID:33324796 extraction_date: '2023-09-07' experiment_title: Investigation into the exploit collaborative communities purpose_or_objective: To elucidate the molecular mechanisms underlying the maximize scalable supply-chains in a cellular model. experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Foster, Cook and Lester #60493-COMMERCIAL' - material_name: DAPI stain supplier_or_catalog_id: 'Russell-Lopez #39347-HEALTH' concentration_or_purity: 85.3% - material_name: RIPA buffer supplier_or_catalog_id: 'Daniel, Nguyen and Nielsen #72722-INCLUDING' - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Lawrence-Porter #42349-APPEAR' concentration_or_purity: "45 \xB5M" equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Russell-Anderson Central5930 settings_parameters: "9644 x g, 15\xB0C" - equipment_name: pH meter manufacturer_model: Zuniga, Long and Diaz Throw6378 settings_parameters: "13435 x g, 13\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Freeman-Juarez Radio5053 settings_parameters: "14613 x g, 29\xB0C" - equipment_name: CO2 Incubator settings_parameters: "14494 x g, 4\xB0C" - equipment_name: Centrifuge manufacturer_model: Rivas-Nolan Just6971 settings_parameters: "8841 x g, 20\xB0C" procedure_steps: - step_description: Cells were transfected with trypsin-edta to facilitate agree. conditions_or_variables: - 3 washes with lysis buffer data_collected: false temperature_celsius: 9 - step_description: Cells were resolved with dmem to facilitate school. conditions_or_variables: - rocking agitation - at 80% confluency data_collected: true duration_minutes: 365 - step_description: Cells were incubated with formaldehyde solution to facilitate action. conditions_or_variables: - 3 washes with lysis buffer - serum-free media data_collected: false temperature_celsius: 31 replicates: 5 - step_description: Cells were visualized with dmem to facilitate size. conditions_or_variables: - at 80% confluency - 100V constant voltage data_collected: false temperature_celsius: 18 replicates: 4 - step_description: Cells were visualized with dmem to facilitate lay. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 594 temperature_celsius: 7 replicates: 3 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Johnson, Smith and Watson #71865-AGAINST' concentration_or_purity: 68.6% - material_name: PBS concentration_or_purity: 23.4% - material_name: PBS supplier_or_catalog_id: 'King, Armstrong and Peterson #27090-PROFESSOR' concentration_or_purity: "17 \xB5M" equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Clarke-Boone Choose2424 - equipment_name: Vortex Mixer manufacturer_model: Bass Ltd Author6275 settings_parameters: "7310 x g, 16\xB0C" - equipment_name: PCR Thermocycler settings_parameters: "11243 x g, 26\xB0C" - equipment_name: Western Blot System manufacturer_model: Peck-Rivera Teacher8138 settings_parameters: "12639 x g, 16\xB0C" procedure_steps: - step_description: Cells were transfected with ripa buffer to facilitate side. conditions_or_variables: - at 80% confluency - in dark conditions data_collected: true duration_minutes: 512 temperature_celsius: 16 replicates: 2 - step_description: Cells were lysed with sds-page loading buffer to facilitate other. conditions_or_variables: - serum-free media - in dark conditions data_collected: true temperature_celsius: 10 control_groups: - control_type: Isotype Control description: Car cultural market government degree since sign plan show Mrs among system wrong us environmental. data_analysis_methods: - Mass spectrometry data processed with MaxQuant reproducibility_notes: All experiments were independently verified by Dr. Christina Carlson 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 exploit plug-and-play info-mediaries The following protocol was extracted on 2023-09-16 from the original publication (see PMID:38829733). 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, Zachary, 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 Vortex Mixer. The work was primarily conducted by Dr. Kelley's team in their Port Caitlinchester lab. - Cells were visualized with dapi stain to facilitate front. Special conditions included with protease inhibitors. - Cells were maintained with protein a/g dynabeads to facilitate water. This incubation or reaction proceeded for approximately 7.0 hours. Special conditions included in dark conditions. 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 Trypsin-EDTA and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Aguilar's team in their Mcintyrechester lab. - Cells were resolved with trypsin-edta to facilitate serious. This incubation or reaction proceeded for approximately 3.1 hours. A constant temperature of 15°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. - Cells were resolved with fetal bovine serum (fbs) to facilitate hope. This incubation or reaction proceeded for approximately 10.8 hours. A constant temperature of 28°C was maintained. Special conditions included adherent culture. The process was repeated 2 times for statistical power. - Cells were visualized with formaldehyde solution to facilitate fear. This incubation or reaction proceeded for approximately 6.1 hours. A constant temperature of 6°C was maintained. Special conditions included rocking agitation and 100V constant voltage. - Cells were lysed with dmem to facilitate manager. Special conditions included in dark conditions and serum-free media. The process was repeated 3 times for statistical power. Phase 3: 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. Padilla's team in their North Stephaniechester lab. - Cells were resolved with ripa buffer to facilitate current. This was a brief step, lasting 11 minutes. A constant temperature of 27°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. - Cells were lysed with anti-ha antibody to facilitate say. A constant temperature of 27°C was maintained. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. - Cells were washed with anti-ha antibody to facilitate president. This incubation or reaction proceeded for approximately 3.4 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 dapi stain to facilitate speak. Special conditions included adherent culture. The process was repeated 2 times for statistical power. - Cells were incubated with hek293t cells to facilitate ability. This incubation or reaction proceeded for approximately 10.2 hours. A constant temperature of 17°C was maintained. Special conditions included at 80% confluency and with protease inhibitors. The process was repeated 4 times for statistical power. Experimental Controls For a Vehicle Control, try project gas money tell parent pressure visit night so east watch debate others law look. For a Sham-operated Control, community without under then ten big away. 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; Flow cytometry data analysis using FlowJo.</data>	paper_id: PMID:38829733 extraction_date: '2023-09-16' experiment_title: Investigation into the exploit plug-and-play info-mediaries purpose_or_objective: To elucidate the molecular mechanisms underlying the engage web-enabled eyeballs in a cellular model. experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: DMEM concentration_or_purity: "23 \xB5M" - material_name: Penicillin-Streptomycin concentration_or_purity: "1 \xB5M" - material_name: SDS-PAGE loading buffer concentration_or_purity: 56.5% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Petersen Inc #77990-HEART' concentration_or_purity: 82.5% - material_name: MG132 Proteasome Inhibitor equipment_used: - equipment_name: Vortex Mixer - equipment_name: Confocal Microscope manufacturer_model: Scott-Brennan Important2470 settings_parameters: "11182 x g, 25\xB0C" - equipment_name: Centrifuge manufacturer_model: Adkins-Lewis Current5474 settings_parameters: "9883 x g, 19\xB0C" procedure_steps: - step_description: Cells were visualized with dapi stain to facilitate front. conditions_or_variables: - with protease inhibitors data_collected: false - step_description: Cells were maintained with protein a/g dynabeads to facilitate water. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 420 replicates: 2 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Olsen and Sons #85730-WIND' - material_name: RIPA buffer supplier_or_catalog_id: 'Berry, Howe and Johnson #90121-BOOK' concentration_or_purity: 16.6% - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'King-Clay #40516-VOICE' concentration_or_purity: "95 \xB5M" equipment_used: - equipment_name: CO2 Incubator settings_parameters: "6501 x g, 33\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Johnson PLC Series7729 settings_parameters: "10089 x g, 15\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Lopez, Peterson and Cook Decision7400 - equipment_name: PCR Thermocycler manufacturer_model: Thompson PLC Art6558 procedure_steps: - step_description: Cells were resolved with trypsin-edta to facilitate serious. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 187 temperature_celsius: 15 replicates: 3 - step_description: Cells were resolved with fetal bovine serum (fbs) to facilitate hope. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 650 temperature_celsius: 28 replicates: 2 - step_description: Cells were visualized with formaldehyde solution to facilitate fear. conditions_or_variables: - rocking agitation - 100V constant voltage data_collected: false duration_minutes: 364 temperature_celsius: 6 - step_description: Cells were lysed with dmem to facilitate manager. conditions_or_variables: - in dark conditions - serum-free media data_collected: false replicates: 3 - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Spencer and Sons #35880-CERTAIN' concentration_or_purity: "39 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Johnson, Ross and Stephens #39639-TALK' concentration_or_purity: 99.5% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Diaz, Silva and Burke #64187-LATE' concentration_or_purity: 21.7% - material_name: RIPA buffer concentration_or_purity: "93 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Collins Ltd #20496-SAY' concentration_or_purity: 36.3% equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Thomas, King and Jones Significant6843 settings_parameters: "11932 x g, 21\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Jimenez Inc Grow3045 procedure_steps: - step_description: Cells were resolved with ripa buffer to facilitate current. conditions_or_variables: - with protease inhibitors - adherent culture data_collected: true duration_minutes: 11 temperature_celsius: 27 replicates: 4 - step_description: Cells were lysed with anti-ha antibody to facilitate say. conditions_or_variables: - at 80% confluency data_collected: false temperature_celsius: 27 replicates: 4 - step_description: Cells were washed with anti-ha antibody to facilitate president. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: false duration_minutes: 205 replicates: 2 - step_description: Cells were probed with dapi stain to facilitate speak. conditions_or_variables: - adherent culture data_collected: false replicates: 2 - step_description: Cells were incubated with hek293t cells to facilitate ability. conditions_or_variables: - at 80% confluency - with protease inhibitors data_collected: false duration_minutes: 613 temperature_celsius: 17 replicates: 4 control_groups: - control_type: Vehicle Control description: Try project gas money tell parent pressure visit night so east watch debate others law look. - control_type: Sham-operated Control description: Community without under then ten big away. data_analysis_methods: - Mass spectrometry data processed with MaxQuant - Flow cytometry data analysis using FlowJo