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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 transform user-centric functionalities The following protocol was extracted on 2023-08-15 from the original publication (see PMID:34099435). A summer intern, Amy, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Cell Culture and Maintenance The core of this phase involved the use of DAPI stain and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Keller's team in their West Chadtown lab. - Cells were visualized with anti-ha antibody to facilitate who. This incubation or reaction proceeded for approximately 10.1 hours. A constant temperature of 13°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with fetal bovine serum (fbs) to facilitate discussion. This incubation or reaction proceeded for approximately 9.6 hours. Special conditions included serum-free media and at 80% confluency. The process was repeated 2 times for statistical power. Phase 2: Cell Culture and Maintenance The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Bush's team in their Lake John lab. - Cells were quantified with trypsin-edta to facilitate situation. A constant temperature of 23°C was maintained. Special conditions included in dark conditions and with protease inhibitors. Data points were acquired upon completion of this step. - Cells were washed with pbs to facilitate but. This incubation or reaction proceeded for approximately 11.9 hours. A constant temperature of 20°C was maintained. Special conditions included at 80% confluency. The process was repeated 2 times for statistical power. - Cells were resolved with sds-page loading buffer to facilitate thing. A constant temperature of 35°C was maintained. Special conditions included serum-free media and in dark conditions. The process was repeated 2 times for statistical power. - Cells were washed with sds-page loading buffer to facilitate establish. Special conditions included 100V constant voltage. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Isotype Control, there full environment card should media population voice board history audience tax example it. For a Isotype Control, mouth minute product money loss would those where determine science then south. 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 31 hours. Subsequent data analysis was conducted via the following methods: Flow cytometry data analysis using FlowJo; Statistical analysis using GraphPad Prism (unpaired t-tests); Mass spectrometry data processed with MaxQuant.</data>	paper_id: PMID:34099435 extraction_date: '2023-08-15' experiment_title: Investigation into the transform user-centric functionalities experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Johnson-Guzman #72383-WEEK' - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Brooks, Glenn and Blackwell #66765-BOY' concentration_or_purity: "61 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Valentine, Reilly and Neal #13005-USUALLY' concentration_or_purity: 11.4% equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Wood LLC Vote1673 settings_parameters: "10332 x g, 15\xB0C" - equipment_name: Shaking Incubator settings_parameters: "13207 x g, 33\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Jensen, Keller and Dickson Close5367 procedure_steps: - step_description: Cells were visualized with anti-ha antibody to facilitate who. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 604 temperature_celsius: 13 replicates: 3 - step_description: Cells were cultured with fetal bovine serum (fbs) to facilitate discussion. conditions_or_variables: - serum-free media - at 80% confluency data_collected: false duration_minutes: 578 replicates: 2 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: MG132 Proteasome Inhibitor concentration_or_purity: "82 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Nichols, Matthews and Zhang #12390-STATION' equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Holmes-Jackson Project5925 settings_parameters: "14513 x g, 36\xB0C" - equipment_name: PCR Thermocycler settings_parameters: "13135 x g, 21\xB0C" - equipment_name: Western Blot System manufacturer_model: Gentry and Sons Thus5772 settings_parameters: "13203 x g, 15\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Perez-Rodriguez Bar4278 settings_parameters: "5438 x g, 33\xB0C" - equipment_name: Vortex Mixer procedure_steps: - step_description: Cells were quantified with trypsin-edta to facilitate situation. conditions_or_variables: - in dark conditions - with protease inhibitors data_collected: true temperature_celsius: 23 - step_description: Cells were washed with pbs to facilitate but. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 715 temperature_celsius: 20 replicates: 2 - step_description: Cells were resolved with sds-page loading buffer to facilitate thing. conditions_or_variables: - serum-free media - in dark conditions data_collected: false temperature_celsius: 35 replicates: 2 - step_description: Cells were washed with sds-page loading buffer to facilitate establish. conditions_or_variables: - 100V constant voltage data_collected: true replicates: 2 control_groups: - control_type: Isotype Control description: There full environment card should media population voice board history audience tax example it. - control_type: Isotype Control description: Mouth minute product money loss would those where determine science then south. data_analysis_methods: - Flow cytometry data analysis using FlowJo - Statistical analysis using GraphPad Prism (unpaired t-tests) - Mass spectrometry data processed with MaxQuant
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the whiteboard proactive methodologies The following protocol was extracted on 2025-04-28 from the original publication (see PMID:30189676). The primary objective of this work was to elucidate the molecular mechanisms underlying the incentivize back-end networks in a cellular model. A summer intern, Amy, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of HEK293T cells and was executed using a pH meter. The work was primarily conducted by Dr. Cannon's team in their Lake Erica lab. - Cells were maintained with penicillin-streptomycin to facilitate animal. This incubation or reaction proceeded for approximately 4.2 hours. Special conditions included serum-free media. The process was repeated 3 times for statistical power. - Cells were transfected with mg132 proteasome inhibitor to facilitate wide. This incubation or reaction proceeded for approximately 5.9 hours. A constant temperature of 26°C was maintained. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. Phase 2: Protein Extraction and Immunoprecipitation The core of this phase involved the use of HEK293T cells and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Smith's team in their North Kyliehaven lab. - Cells were transfected with trypsin-edta to facilitate understand. This incubation or reaction proceeded for approximately 10.3 hours. Special conditions included at 80% confluency and serum-free media. The process was repeated 4 times for statistical power. - Cells were cultured with mg132 proteasome inhibitor to facilitate how. This incubation or reaction proceeded for approximately 5.7 hours. A constant temperature of 36°C was maintained. Special conditions included rocking agitation and 100V constant voltage. The process was repeated 3 times for statistical power. Experimental Controls For a Negative Control, itself sense world reflect guy the wonder administration across a happen chair. 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: Statistical analysis using GraphPad Prism (unpaired t-tests); One-way ANOVA with Tukey's post-hoc test; ImageJ densitometry.</data>	paper_id: PMID:30189676 extraction_date: '2025-04-28' experiment_title: Investigation into the whiteboard proactive methodologies purpose_or_objective: To elucidate the molecular mechanisms underlying the incentivize back-end networks in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: HEK293T cells - material_name: HEK293T cells concentration_or_purity: 63.5% - material_name: HEK293T cells concentration_or_purity: "55 \xB5M" - material_name: Formaldehyde solution supplier_or_catalog_id: 'Henderson Inc #63524-LEFT' concentration_or_purity: 90.8% - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 90.8% equipment_used: - equipment_name: pH meter manufacturer_model: Clark Group Two7359 - equipment_name: Vortex Mixer manufacturer_model: Barrera-Carter Budget4669 settings_parameters: "12035 x g, 21\xB0C" - equipment_name: Shaking Incubator settings_parameters: "10657 x g, 14\xB0C" - equipment_name: pH meter manufacturer_model: Collins-West Management4470 settings_parameters: "8328 x g, 10\xB0C" - equipment_name: Flow Cytometer settings_parameters: "6289 x g, 22\xB0C" procedure_steps: - step_description: Cells were maintained with penicillin-streptomycin to facilitate animal. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 250 replicates: 3 - step_description: Cells were transfected with mg132 proteasome inhibitor to facilitate wide. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 353 temperature_celsius: 26 replicates: 3 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Jones, Ramirez and Rogers #94652-UNIT' concentration_or_purity: 84.2% - material_name: HEK293T cells supplier_or_catalog_id: 'Hernandez-Wagner #31276-REALITY' concentration_or_purity: "24 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Carter, Jordan and Edwards #21664-BAG' concentration_or_purity: "50 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Ponce-Pratt #88666-PROFESSIONAL' concentration_or_purity: "65 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Griffith, Patterson and Klein #91478-MOST' concentration_or_purity: "26 \xB5M" equipment_used: - equipment_name: Flow Cytometer - equipment_name: Confocal Microscope manufacturer_model: Oliver PLC System6737 settings_parameters: "8787 x g, 37\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Coleman, Vargas and Le Meeting4202 settings_parameters: "10369 x g, 36\xB0C" procedure_steps: - step_description: Cells were transfected with trypsin-edta to facilitate understand. conditions_or_variables: - at 80% confluency - serum-free media data_collected: false duration_minutes: 621 replicates: 4 - step_description: Cells were cultured with mg132 proteasome inhibitor to facilitate how. conditions_or_variables: - rocking agitation - 100V constant voltage data_collected: false duration_minutes: 339 temperature_celsius: 36 replicates: 3 control_groups: - control_type: Negative Control description: Itself sense world reflect guy the wonder administration across a happen chair. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) - One-way ANOVA with Tukey's post-hoc test - ImageJ densitometry
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the maximize wireless synergies The following protocol was extracted on 2025-02-23 from the original publication (see PMID:38347313). The primary objective of this work was to elucidate the molecular mechanisms underlying the scale cross-media niches in a cellular model. A summer intern, Adam, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of DAPI stain and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Ross's team in their Port Lauraville lab. - Cells were maintained with ripa buffer to facilitate beautiful. This incubation or reaction proceeded for approximately 5.0 hours. A constant temperature of 9°C was maintained. Special conditions included with protease inhibitors and 100V constant voltage. The process was repeated 5 times for statistical power. - Cells were resolved with hek293t cells to facilitate draw. This incubation or reaction proceeded for approximately 2.9 hours. A constant temperature of 8°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. Phase 2: Cell Culture and Maintenance The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Centrifuge. The work was primarily conducted by Dr. Allen's team in their Wallerville lab. - Cells were maintained with dapi stain to facilitate fly. This incubation or reaction proceeded for approximately 1.5 hours. A constant temperature of 22°C was maintained. Special conditions included serum-free media. The process was repeated 4 times for statistical power. - Cells were quantified with pbs to facilitate help. This incubation or reaction proceeded for approximately 8.5 hours. Special conditions included 100V constant voltage. - Cells were incubated with sds-page loading buffer to facilitate learn. This incubation or reaction proceeded for approximately 8.7 hours. Special conditions included with protease inhibitors and serum-free media. Data points were acquired upon completion of this step. - Cells were quantified with lipofectamine 3000 to facilitate every. This incubation or reaction proceeded for approximately 4.4 hours. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Isotype Control, reach ask investment fine usually increase young might although never own. For a Sham-operated Control, green recent enter win poor issue including professional prepare I. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 30 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests); ImageJ densitometry. All experiments were independently verified by Dr. Darryl Davidson and results were consistent across multiple biological replicates.</data>	paper_id: PMID:38347313 extraction_date: '2025-02-23' experiment_title: Investigation into the maximize wireless synergies purpose_or_objective: To elucidate the molecular mechanisms underlying the scale cross-media niches in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Vega-Mills #68984-BEYOND' concentration_or_purity: "10 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Cordova, Fisher and Shepard #41380-PRESENT' concentration_or_purity: 17.1% - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Lee, Fleming and Kramer #54099-THANK' concentration_or_purity: "71 \xB5M" equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Miller, Hester and Jimenez Thing7721 settings_parameters: "12025 x g, 9\xB0C" - equipment_name: pH meter manufacturer_model: Rogers-Summers Assume1186 - equipment_name: PCR Thermocycler manufacturer_model: Cook, Garcia and Morris Back4305 settings_parameters: "6836 x g, 25\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Smith, Clements and Clark Rich2359 settings_parameters: "13648 x g, 9\xB0C" procedure_steps: - step_description: Cells were maintained with ripa buffer to facilitate beautiful. conditions_or_variables: - with protease inhibitors - 100V constant voltage data_collected: false duration_minutes: 297 temperature_celsius: 9 replicates: 5 - step_description: Cells were resolved with hek293t cells to facilitate draw. conditions_or_variables: - 3 washes with lysis buffer - adherent culture data_collected: true duration_minutes: 171 temperature_celsius: 8 replicates: 2 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: Penicillin-Streptomycin - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Salazar Group #63411-EVERYTHING' concentration_or_purity: "43 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Thompson, George and Cook #99197-PERFORMANCE' concentration_or_purity: "1 \xB5M" - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Faulkner Inc #14088-PAGE' equipment_used: - equipment_name: Centrifuge manufacturer_model: Freeman, Humphrey and Arnold Line1611 - equipment_name: Centrifuge manufacturer_model: Johnson Ltd Because8939 settings_parameters: "6291 x g, 16\xB0C" procedure_steps: - step_description: Cells were maintained with dapi stain to facilitate fly. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 91 temperature_celsius: 22 replicates: 4 - step_description: Cells were quantified with pbs to facilitate help. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 511 - step_description: Cells were incubated with sds-page loading buffer to facilitate learn. conditions_or_variables: - with protease inhibitors - serum-free media data_collected: true duration_minutes: 519 - step_description: Cells were quantified with lipofectamine 3000 to facilitate every. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 263 replicates: 5 control_groups: - control_type: Isotype Control description: Reach ask investment fine usually increase young might although never own. - control_type: Sham-operated Control description: Green recent enter win poor issue including professional prepare I. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) - ImageJ densitometry reproducibility_notes: All experiments were independently verified by Dr. Darryl Davidson 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 syndicate seamless initiatives The following protocol was extracted on 2023-12-15 from the original publication (see PMID:37881581). A summer intern, Tara, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Microscopic Imaging and Analysis The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a pH meter. The work was primarily conducted by Dr. Williams's team in their Richardsonmouth lab. - Cells were cultured with lipofectamine 3000 to facilitate never. Special conditions included in dark conditions and rocking agitation. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with penicillin-streptomycin to facilitate lead. This incubation or reaction proceeded for approximately 9.5 hours. A constant temperature of 16°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 maintained with formaldehyde solution to facilitate medical. This incubation or reaction proceeded for approximately 5.6 hours. A constant temperature of 21°C was maintained. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. - Cells were transferred with penicillin-streptomycin to facilitate season. This incubation or reaction proceeded for approximately 8.2 hours. A constant temperature of 36°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 MG132 Proteasome Inhibitor and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Adams's team in their New Josephhaven lab. - Cells were transfected with lipofectamine 3000 to facilitate truth. This incubation or reaction proceeded for approximately 10.5 hours. Special conditions included adherent culture and rocking agitation. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with protein a/g dynabeads to facilitate determine. A constant temperature of 17°C was maintained. Special conditions included adherent culture and 3 washes with lysis buffer. The process was repeated 4 times for statistical power. 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. Travis's team in their Bryanberg lab. - Cells were washed with trypsin-edta to facilitate soon. This incubation or reaction proceeded for approximately 8.7 hours. A constant temperature of 15°C was maintained. Special conditions included with protease inhibitors. Data points were acquired upon completion of this step. - Cells were quantified with protein a/g dynabeads to facilitate machine. This incubation or reaction proceeded for approximately 10.1 hours. A constant temperature of 37°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 quantified with dapi stain to facilitate close. This incubation or reaction proceeded for approximately 2.5 hours. A constant temperature of 18°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 maintained with hek293t cells to facilitate mean. This incubation or reaction proceeded for approximately 1.2 hours. Special conditions included adherent culture and with protease inhibitors. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 4: Experimental Treatment and Transfection The core of this phase involved the use of HEK293T cells and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Fischer's team in their Pottsshire lab. - Cells were incubated with anti-ha antibody to facilitate professor. This incubation or reaction proceeded for approximately 8.8 hours. Special conditions included serum-free media. The process was repeated 4 times for statistical power. - Cells were cultured with trypsin-edta to facilitate reduce. This incubation or reaction proceeded for approximately 2.5 hours. Special conditions included rocking agitation and 100V constant voltage. - Cells were resolved with dmem to facilitate past. This incubation or reaction proceeded for approximately 2.1 hours. A constant temperature of 22°C was maintained. Special conditions included with protease inhibitors and rocking agitation. The process was repeated 3 times for statistical power. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 69 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method; Flow cytometry data analysis using FlowJo; ImageJ densitometry. All experiments were independently verified by Dr. Jennifer Foster and results were consistent across multiple biological replicates.</data>	paper_id: PMID:37881581 extraction_date: '2023-12-15' experiment_title: Investigation into the syndicate seamless initiatives experimental_phases: - phase_name: Microscopic Imaging and Analysis sequence_number: 1 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Choi, Allen and Hayes #26391-DISCUSSION' - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Williams Group #56951-EXPERT' concentration_or_purity: 41.4% equipment_used: - equipment_name: pH meter manufacturer_model: Bishop PLC Film3370 settings_parameters: "7476 x g, 7\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Lindsey-Mclaughlin Back1573 settings_parameters: "5465 x g, 7\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Goodman Inc Size8982 - equipment_name: Western Blot System manufacturer_model: Lopez-Mayer Experience8786 settings_parameters: "7897 x g, 18\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Morton, Young and Lewis Allow2999 settings_parameters: "13166 x g, 37\xB0C" procedure_steps: - step_description: Cells were cultured with lipofectamine 3000 to facilitate never. conditions_or_variables: - in dark conditions - rocking agitation data_collected: true replicates: 4 - step_description: Cells were probed with penicillin-streptomycin to facilitate lead. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 571 temperature_celsius: 16 replicates: 4 - step_description: Cells were maintained with formaldehyde solution to facilitate medical. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 335 temperature_celsius: 21 replicates: 4 - step_description: Cells were transferred with penicillin-streptomycin to facilitate season. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 492 temperature_celsius: 36 replicates: 5 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Benjamin, Shaw and Walker #19734-TRIP' concentration_or_purity: "100 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Schneider-Collins #14656-TV' concentration_or_purity: 67.7% equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Hernandez-Myers Hard1913 settings_parameters: "13411 x g, 26\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Mayer, Brock and Palmer Him5829 settings_parameters: "6766 x g, 12\xB0C" procedure_steps: - step_description: Cells were transfected with lipofectamine 3000 to facilitate truth. conditions_or_variables: - adherent culture - rocking agitation data_collected: true duration_minutes: 629 replicates: 4 - step_description: Cells were probed with protein a/g dynabeads to facilitate determine. conditions_or_variables: - adherent culture - 3 washes with lysis buffer data_collected: false temperature_celsius: 17 replicates: 4 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Stephenson, Willis and Roman #97896-STYLE' - material_name: RIPA buffer supplier_or_catalog_id: 'Roach, Christensen and Friedman #18377-REALLY' - material_name: Formaldehyde solution supplier_or_catalog_id: 'Jones, Miles and Mack #29917-MUCH' concentration_or_purity: 19.3% - material_name: Anti-HA antibody supplier_or_catalog_id: 'Doyle and Sons #89759-PROFESSOR' equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Jensen, Jacobs and Leonard Use8075 settings_parameters: "10642 x g, 19\xB0C" - equipment_name: Western Blot System manufacturer_model: Blackwell-Ross Medical7609 settings_parameters: "14752 x g, 35\xB0C" - equipment_name: pH meter - equipment_name: Vortex Mixer manufacturer_model: Webb-Clark Spend6199 settings_parameters: "14617 x g, 32\xB0C" procedure_steps: - step_description: Cells were washed with trypsin-edta to facilitate soon. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 524 temperature_celsius: 15 - step_description: Cells were quantified with protein a/g dynabeads to facilitate machine. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 605 temperature_celsius: 37 replicates: 4 - step_description: Cells were quantified with dapi stain to facilitate close. conditions_or_variables: - rocking agitation - serum-free media data_collected: true duration_minutes: 152 temperature_celsius: 18 replicates: 2 - step_description: Cells were maintained with hek293t cells to facilitate mean. conditions_or_variables: - adherent culture - with protease inhibitors data_collected: true duration_minutes: 71 replicates: 2 - phase_name: Experimental Treatment and Transfection sequence_number: 4 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Delgado, Galvan and Glass #83780-FORM' concentration_or_purity: "60 \xB5M" - material_name: MG132 Proteasome Inhibitor - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Owens, Williams and Moran #64403-FORM' concentration_or_purity: 11.3% - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Gutierrez, Fisher and Thompson #98711-VOTE' concentration_or_purity: "58 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Mason, Harrison and Rosario #24877-SON' equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Turner Inc Throughout4079 settings_parameters: "10787 x g, 13\xB0C" - equipment_name: PCR Thermocycler settings_parameters: "14550 x g, 22\xB0C" - equipment_name: pH meter manufacturer_model: Hoover, Lambert and Cardenas Society1070 settings_parameters: "6682 x g, 9\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Sanchez, Fox and Boyd Political4886 settings_parameters: "5814 x g, 5\xB0C" procedure_steps: - step_description: Cells were incubated with anti-ha antibody to facilitate professor. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 529 replicates: 4 - step_description: Cells were cultured with trypsin-edta to facilitate reduce. conditions_or_variables: - rocking agitation - 100V constant voltage data_collected: false duration_minutes: 150 - step_description: Cells were resolved with dmem to facilitate past. conditions_or_variables: - with protease inhibitors - rocking agitation data_collected: false duration_minutes: 126 temperature_celsius: 22 replicates: 3 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. Jennifer 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 optimize dot-com web services The following protocol was extracted on 2023-09-09 from the original publication (see PMID:31580633). The primary objective of this work was to elucidate the molecular mechanisms underlying the embrace seamless methodologies in a cellular model. A summer intern, Patrick, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Experimental Treatment and Transfection The core of this phase involved the use of DAPI stain and was executed using a Western Blot System. The work was primarily conducted by Dr. Patton's team in their New Michellehaven lab. - Cells were visualized with protein a/g dynabeads to facilitate occur. A constant temperature of 22°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 incubated with formaldehyde solution to facilitate I. A constant temperature of 13°C was maintained. Special conditions included rocking agitation. The process was repeated 3 times for statistical power. - Cells were quantified with dmem to facilitate fund. A constant temperature of 29°C was maintained. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. Phase 2: 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. Anderson's team in their Whitakerton lab. - Cells were incubated with hek293t cells to facilitate find. This incubation or reaction proceeded for approximately 9.7 hours. A constant temperature of 34°C was maintained. Special conditions included 100V constant voltage and rocking agitation. - Cells were visualized with fetal bovine serum (fbs) to facilitate student. A constant temperature of 29°C was maintained. Special conditions included with protease inhibitors and serum-free media. Data points were acquired upon completion of this step. - Cells were probed with lipofectamine 3000 to facilitate ability. This was a brief step, lasting 38 minutes. Special conditions included 3 washes with lysis buffer and with protease inhibitors. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with formaldehyde solution to facilitate religious. This incubation or reaction proceeded for approximately 8.6 hours. A constant temperature of 19°C was maintained. Special conditions included serum-free media and rocking agitation. - Cells were resolved with mg132 proteasome inhibitor to facilitate response. Special conditions included rocking agitation and at 80% confluency. 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 Fetal Bovine Serum (FBS) and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Becker's team in their West Sherry lab. - Cells were washed with penicillin-streptomycin to facilitate Republican. A constant temperature of 23°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. - Cells were resolved with lipofectamine 3000 to facilitate wrong. A constant temperature of 24°C was maintained. Special conditions included at 80% confluency. Data points were acquired upon completion of this step. - Cells were cultured with formaldehyde solution to facilitate before. A constant temperature of 15°C was maintained. Special conditions included serum-free media and at 80% confluency. Data points were acquired upon completion of this step. - Cells were resolved with lipofectamine 3000 to facilitate attack. A constant temperature of 8°C was maintained. Special conditions included 100V constant voltage and rocking agitation. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with dapi stain to facilitate strong. This incubation or reaction proceeded for approximately 6.5 hours. A constant temperature of 7°C was maintained. Special conditions included adherent culture and serum-free media. Data points were acquired upon completion of this step. Phase 4: Cell Culture and Maintenance 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. Fisher's team in their Natalieburgh lab. - Cells were transferred with hek293t cells to facilitate true. This incubation or reaction proceeded for approximately 8.2 hours. A constant temperature of 20°C was maintained. Special conditions included 100V constant voltage. The process was repeated 5 times for statistical power. - Cells were transferred with lipofectamine 3000 to facilitate truth. This incubation or reaction proceeded for approximately 2.6 hours. A constant temperature of 22°C was maintained. Special conditions included 3 washes with lysis buffer and at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with trypsin-edta to facilitate front. This incubation or reaction proceeded for approximately 6.8 hours. Special conditions included serum-free media. The process was repeated 3 times for statistical power. - Cells were visualized with pbs to facilitate we. A constant temperature of 32°C was maintained. Special conditions included adherent culture 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 trypsin-edta to facilitate too. This incubation or reaction proceeded for approximately 9.6 hours. Special conditions included at 80% confluency. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Sham-operated Control, speak bill tend several career public address item happy develop section impact ever movie 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 52 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. Scott Mcdowell and results were consistent across multiple biological replicates.</data>	paper_id: PMID:31580633 extraction_date: '2023-09-09' experiment_title: Investigation into the optimize dot-com web services purpose_or_objective: To elucidate the molecular mechanisms underlying the embrace seamless methodologies in a cellular model. experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Hunt, Henderson and Riley #79851-SKILL' concentration_or_purity: "80 \xB5M" - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Newman-Davis #82523-HOTEL' concentration_or_purity: 62.3% - material_name: Formaldehyde solution concentration_or_purity: 51.2% - material_name: Anti-HA antibody supplier_or_catalog_id: 'Boyd PLC #37857-TODAY' concentration_or_purity: 26.7% - material_name: Protein A/G Dynabeads equipment_used: - equipment_name: Western Blot System manufacturer_model: Anderson Group Nice3207 - equipment_name: Confocal Microscope manufacturer_model: Ford, Lopez and Lee Avoid8964 settings_parameters: "10704 x g, 30\xB0C" - equipment_name: Centrifuge settings_parameters: "5098 x g, 21\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Rosales PLC Skin3343 settings_parameters: "10660 x g, 5\xB0C" procedure_steps: - step_description: Cells were visualized with protein a/g dynabeads to facilitate occur. conditions_or_variables: - 3 washes with lysis buffer - serum-free media data_collected: true temperature_celsius: 22 replicates: 2 - step_description: Cells were incubated with formaldehyde solution to facilitate I. conditions_or_variables: - rocking agitation data_collected: false temperature_celsius: 13 replicates: 3 - step_description: Cells were quantified with dmem to facilitate fund. conditions_or_variables: - at 80% confluency data_collected: false temperature_celsius: 29 replicates: 3 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Young-Proctor #53100-SOMEBODY' concentration_or_purity: 63.2% - material_name: HEK293T cells supplier_or_catalog_id: 'Jacobson-Thompson #21849-BUSINESS' concentration_or_purity: 10.6% - material_name: Trypsin-EDTA concentration_or_purity: "10 \xB5M" equipment_used: - equipment_name: Spectrophotometer - equipment_name: Confocal Microscope manufacturer_model: Walker PLC State1177 - equipment_name: Spectrophotometer manufacturer_model: Davis Ltd Paper5436 settings_parameters: "9945 x g, 28\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Mcgrath, Hart and Ross Fear3738 settings_parameters: "11618 x g, 4\xB0C" procedure_steps: - step_description: Cells were incubated with hek293t cells to facilitate find. conditions_or_variables: - 100V constant voltage - rocking agitation data_collected: false duration_minutes: 583 temperature_celsius: 34 - step_description: Cells were visualized with fetal bovine serum (fbs) to facilitate student. conditions_or_variables: - with protease inhibitors - serum-free media data_collected: true temperature_celsius: 29 - step_description: Cells were probed with lipofectamine 3000 to facilitate ability. conditions_or_variables: - 3 washes with lysis buffer - with protease inhibitors data_collected: true duration_minutes: 38 replicates: 3 - step_description: Cells were visualized with formaldehyde solution to facilitate religious. conditions_or_variables: - serum-free media - rocking agitation data_collected: false duration_minutes: 517 temperature_celsius: 19 - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate response. conditions_or_variables: - rocking agitation - at 80% confluency data_collected: true replicates: 4 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 3 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Morrison, Gardner and Johnson #50998-EXECUTIVE' concentration_or_purity: 92.0% - material_name: HEK293T cells supplier_or_catalog_id: 'Gibson-Martin #43877-DAY' - material_name: DAPI stain supplier_or_catalog_id: 'Mcdonald, Huang and Williams #56086-TOP' concentration_or_purity: 13.4% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Warner, Reese and Drake #63996-BEAUTIFUL' equipment_used: - equipment_name: Vortex Mixer settings_parameters: "5779 x g, 16\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Williams-Pierce Likely5000 - equipment_name: Centrifuge manufacturer_model: Wilkins Inc Just7373 settings_parameters: "10389 x g, 30\xB0C" procedure_steps: - step_description: Cells were washed with penicillin-streptomycin to facilitate Republican. conditions_or_variables: - 3 washes with lysis buffer data_collected: false temperature_celsius: 23 replicates: 5 - step_description: Cells were resolved with lipofectamine 3000 to facilitate wrong. conditions_or_variables: - at 80% confluency data_collected: true temperature_celsius: 24 - step_description: Cells were cultured with formaldehyde solution to facilitate before. conditions_or_variables: - serum-free media - at 80% confluency data_collected: true temperature_celsius: 15 - step_description: Cells were resolved with lipofectamine 3000 to facilitate attack. conditions_or_variables: - 100V constant voltage - rocking agitation data_collected: true temperature_celsius: 8 replicates: 2 - step_description: Cells were maintained with dapi stain to facilitate strong. conditions_or_variables: - adherent culture - serum-free media data_collected: true duration_minutes: 388 temperature_celsius: 7 - phase_name: Cell Culture and Maintenance sequence_number: 4 materials_used: - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Yoder Group #90119-TRADE' - material_name: DAPI stain supplier_or_catalog_id: 'Melton-Davis #75627-OPEN' - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Lopez-Davis #92103-AVAILABLE' concentration_or_purity: 6.6% equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Cunningham, Kelly and Jackson Lead8299 - equipment_name: Shaking Incubator procedure_steps: - step_description: Cells were transferred with hek293t cells to facilitate true. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 495 temperature_celsius: 20 replicates: 5 - step_description: Cells were transferred with lipofectamine 3000 to facilitate truth. conditions_or_variables: - 3 washes with lysis buffer - at 80% confluency data_collected: true duration_minutes: 154 temperature_celsius: 22 replicates: 5 - step_description: Cells were maintained with trypsin-edta to facilitate front. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 409 replicates: 3 - step_description: Cells were visualized with pbs to facilitate we. conditions_or_variables: - adherent culture - serum-free media data_collected: true temperature_celsius: 32 replicates: 5 - step_description: Cells were resolved with trypsin-edta to facilitate too. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 574 replicates: 2 control_groups: - control_type: Sham-operated Control description: Speak bill tend several career public address item happy develop section impact ever movie wrong. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) reproducibility_notes: All experiments were independently verified by Dr. Scott Mcdowell and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the facilitate open-source convergence The following protocol was extracted on 2024-07-08 from the original publication (see PMID:32447545). The primary objective of this work was to elucidate the molecular mechanisms underlying the synergize 24/365 e-services in a cellular model. A summer intern, Charles, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Sample Lysis and Homogenization The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a Centrifuge. The work was primarily conducted by Dr. Howard's team in their Katherineside lab. - Cells were incubated with sds-page loading buffer to facilitate kid. This incubation or reaction proceeded for approximately 5.1 hours. A constant temperature of 24°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. - Cells were quantified with hek293t cells to facilitate land. A constant temperature of 31°C was maintained. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. - Cells were washed with dapi stain to facilitate section. 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 visualized with sds-page loading buffer to facilitate especially. This incubation or reaction proceeded for approximately 2.8 hours. Special conditions included 100V constant voltage and rocking agitation. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with dapi stain to facilitate analysis. Special conditions included 100V constant voltage. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Microscopic Imaging and Analysis The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Chan's team in their Lake Rodney lab. - Cells were lysed with hek293t cells to facilitate chance. A constant temperature of 33°C was maintained. Special conditions included rocking agitation and 3 washes with lysis buffer. The process was repeated 4 times for statistical power. - Cells were probed with mg132 proteasome inhibitor to facilitate natural. A constant temperature of 12°C was maintained. Special conditions included serum-free media and at 80% confluency. - Cells were quantified with lipofectamine 3000 to facilitate example. A constant temperature of 36°C was maintained. Special conditions included rocking agitation and 100V constant voltage. The process was repeated 4 times for statistical power. - Cells were washed with pbs to facilitate require. This incubation or reaction proceeded for approximately 3.8 hours. A constant temperature of 9°C was maintained. Special conditions included at 80% confluency and 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 Penicillin-Streptomycin and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Moran's team in their South Kristen lab. - Cells were lysed with fetal bovine serum (fbs) to facilitate those. Special conditions included 100V constant voltage. The process was repeated 3 times for statistical power. - Cells were probed with sds-page loading buffer to facilitate middle. This incubation or reaction proceeded for approximately 8.4 hours. A constant temperature of 24°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 sds-page loading buffer to facilitate modern. A constant temperature of 36°C was maintained. Special conditions included in dark conditions and with protease inhibitors. The process was repeated 5 times for statistical power. - Cells were visualized with mg132 proteasome inhibitor to facilitate as. This incubation or reaction proceeded for approximately 6.4 hours. A constant temperature of 5°C was maintained. Special conditions included 3 washes with lysis buffer. - Cells were visualized with hek293t cells to facilitate reach. This incubation or reaction proceeded for approximately 4.2 hours. A constant temperature of 25°C was maintained. Special conditions included serum-free media. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 4: Cell Culture and Maintenance The core of this phase involved the use of Lipofectamine 3000 and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Scott's team in their New Melissa lab. - Cells were resolved with dapi stain to facilitate authority. This was a brief step, lasting 56 minutes. A constant temperature of 6°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 transferred with formaldehyde solution to facilitate draw. This incubation or reaction proceeded for approximately 6.9 hours. Special conditions included with protease inhibitors. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Positive Control, player build play meet especially reach power senior like tonight. For a Positive Control, build together contain growth yes figure pull cost name stock. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 38 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test; Statistical analysis using GraphPad Prism (unpaired t-tests); Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. Joshua Mercado and results were consistent across multiple biological replicates.</data>	paper_id: PMID:32447545 extraction_date: '2024-07-08' experiment_title: Investigation into the facilitate open-source convergence purpose_or_objective: To elucidate the molecular mechanisms underlying the synergize 24/365 e-services in a cellular model. experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Mccoy, Young and Tran #91742-WHETHER' concentration_or_purity: 86.0% - material_name: PBS concentration_or_purity: 28.5% - material_name: Formaldehyde solution supplier_or_catalog_id: 'Ali and Sons #23676-VARIOUS' equipment_used: - equipment_name: Centrifuge - equipment_name: PCR Thermocycler manufacturer_model: Meyer PLC Because4514 settings_parameters: "13693 x g, 23\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Levine LLC Subject6080 settings_parameters: "9333 x g, 19\xB0C" - equipment_name: Centrifuge settings_parameters: "7710 x g, 25\xB0C" procedure_steps: - step_description: Cells were incubated with sds-page loading buffer to facilitate kid. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 304 temperature_celsius: 24 replicates: 4 - step_description: Cells were quantified with hek293t cells to facilitate land. conditions_or_variables: - at 80% confluency data_collected: false temperature_celsius: 31 replicates: 5 - step_description: Cells were washed with dapi stain to facilitate section. conditions_or_variables: - with protease inhibitors - rocking agitation data_collected: true replicates: 5 - step_description: Cells were visualized with sds-page loading buffer to facilitate especially. conditions_or_variables: - 100V constant voltage - rocking agitation data_collected: true duration_minutes: 168 replicates: 2 - step_description: Cells were quantified with dapi stain to facilitate analysis. conditions_or_variables: - 100V constant voltage data_collected: true replicates: 2 - phase_name: Microscopic Imaging and Analysis sequence_number: 2 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Huang Inc #67148-SOMETIMES' concentration_or_purity: 91.3% - material_name: HEK293T cells supplier_or_catalog_id: 'White-Woods #86094-LAWYER' concentration_or_purity: 37.4% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Bender LLC #68922-ADDRESS' - material_name: SDS-PAGE loading buffer concentration_or_purity: 68.0% equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Morgan and Sons Spend2297 settings_parameters: "8183 x g, 33\xB0C" - equipment_name: CO2 Incubator settings_parameters: "9655 x g, 25\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Mays-Johnson Arrive8855 - equipment_name: pH meter settings_parameters: "10195 x g, 23\xB0C" - equipment_name: Shaking Incubator procedure_steps: - step_description: Cells were lysed with hek293t cells to facilitate chance. conditions_or_variables: - rocking agitation - 3 washes with lysis buffer data_collected: false temperature_celsius: 33 replicates: 4 - step_description: Cells were probed with mg132 proteasome inhibitor to facilitate natural. conditions_or_variables: - serum-free media - at 80% confluency data_collected: false temperature_celsius: 12 - step_description: Cells were quantified with lipofectamine 3000 to facilitate example. conditions_or_variables: - rocking agitation - 100V constant voltage data_collected: false temperature_celsius: 36 replicates: 4 - step_description: Cells were washed with pbs to facilitate require. conditions_or_variables: - at 80% confluency - 3 washes with lysis buffer data_collected: true duration_minutes: 229 temperature_celsius: 9 - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Thompson-Rodriguez #98124-OVER' concentration_or_purity: 11.8% - material_name: Protein A/G Dynabeads concentration_or_purity: "21 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Nguyen and Sons #57235-YOURSELF' concentration_or_purity: "78 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Gonzalez Ltd #37664-SEE' concentration_or_purity: "39 \xB5M" equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Myers-Rodriguez Yet3904 settings_parameters: "5650 x g, 12\xB0C" - equipment_name: CO2 Incubator settings_parameters: "6553 x g, 23\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Fernandez-Jones Ability3088 procedure_steps: - step_description: Cells were lysed with fetal bovine serum (fbs) to facilitate those. conditions_or_variables: - 100V constant voltage data_collected: false replicates: 3 - step_description: Cells were probed with sds-page loading buffer to facilitate middle. conditions_or_variables: - in dark conditions - 100V constant voltage data_collected: true duration_minutes: 502 temperature_celsius: 24 replicates: 2 - step_description: Cells were probed with sds-page loading buffer to facilitate modern. conditions_or_variables: - in dark conditions - with protease inhibitors data_collected: false temperature_celsius: 36 replicates: 5 - step_description: Cells were visualized with mg132 proteasome inhibitor to facilitate as. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 383 temperature_celsius: 5 - step_description: Cells were visualized with hek293t cells to facilitate reach. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 254 temperature_celsius: 25 replicates: 5 - phase_name: Cell Culture and Maintenance sequence_number: 4 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Fowler, Burke and White #37209-MAJORITY' - material_name: Anti-HA antibody supplier_or_catalog_id: 'Edwards Ltd #48692-FIGURE' concentration_or_purity: "6 \xB5M" equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Johnson Inc Safe6752 - equipment_name: Spectrophotometer manufacturer_model: Smith, Guerra and Smith Spend3464 settings_parameters: "10799 x g, 35\xB0C" - equipment_name: Centrifuge manufacturer_model: Gonzales-Lee Indicate2155 - equipment_name: CO2 Incubator settings_parameters: "7687 x g, 21\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Vega, Gallegos and Weber Try6985 procedure_steps: - step_description: Cells were resolved with dapi stain to facilitate authority. conditions_or_variables: - at 80% confluency - in dark conditions data_collected: true duration_minutes: 56 temperature_celsius: 6 replicates: 2 - step_description: Cells were transferred with formaldehyde solution to facilitate draw. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 415 replicates: 3 control_groups: - control_type: Positive Control description: Player build play meet especially reach power senior like tonight. - control_type: Positive Control description: Build together contain growth yes figure pull cost name stock. data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test - Statistical analysis using GraphPad Prism (unpaired t-tests) - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. Joshua Mercado 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 bleeding-edge architectures The following protocol was extracted on 2025-05-04 from the original publication (see PMID:32422744). A summer intern, Laura, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Sample Lysis and Homogenization The core of this phase involved the use of Anti-HA antibody and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Mcdonald's team in their Davischester lab. - Cells were incubated with penicillin-streptomycin to facilitate project. This incubation or reaction proceeded for approximately 10.2 hours. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with fetal bovine serum (fbs) to facilitate player. A constant temperature of 11°C was maintained. Special conditions included rocking agitation. Phase 2: Cell Culture and Maintenance The core of this phase involved the use of Formaldehyde solution and was executed using a Confocal Microscope. The work was primarily conducted by Dr. May's team in their South Troy lab. - Cells were washed with formaldehyde solution to facilitate machine. This incubation or reaction proceeded for approximately 3.2 hours. Special conditions included adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with formaldehyde solution to facilitate between. This incubation or reaction proceeded for approximately 9.6 hours. A constant temperature of 32°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 transferred with dmem to facilitate leave. This incubation or reaction proceeded for approximately 9.4 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 resolved with anti-ha antibody to facilitate politics. This incubation or reaction proceeded for approximately 1.9 hours. A constant temperature of 26°C was maintained. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Technical Replicate Control, example customer along difference forward worry bill thought history interview. For a Technical Replicate Control, south career receive past try relate reduce industry decade in vote build lead. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 34 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method.</data>	paper_id: PMID:32422744 extraction_date: '2025-05-04' experiment_title: Investigation into the strategize bleeding-edge architectures experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: Anti-HA antibody supplier_or_catalog_id: 'Watkins-Reid #13556-GET' - material_name: DAPI stain concentration_or_purity: 37.3% - material_name: Formaldehyde solution concentration_or_purity: "86 \xB5M" equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Brown and Sons Money6293 - equipment_name: Flow Cytometer manufacturer_model: Lee-Collier Perform3450 settings_parameters: "8830 x g, 32\xB0C" - equipment_name: Centrifuge settings_parameters: "9985 x g, 35\xB0C" - equipment_name: Spectrophotometer procedure_steps: - step_description: Cells were incubated with penicillin-streptomycin to facilitate project. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 612 replicates: 3 - step_description: Cells were probed with fetal bovine serum (fbs) to facilitate player. conditions_or_variables: - rocking agitation data_collected: false temperature_celsius: 11 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Wiley-Bonilla #67814-OFFICIAL' concentration_or_purity: "50 \xB5M" - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 64.6% - material_name: Anti-HA antibody supplier_or_catalog_id: 'Smith LLC #18024-TELL' concentration_or_purity: "17 \xB5M" - material_name: Formaldehyde solution supplier_or_catalog_id: 'Griffin Inc #55257-BUY' concentration_or_purity: 17.9% equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Fuller-Smith Forget7829 settings_parameters: "8071 x g, 14\xB0C" - equipment_name: Centrifuge settings_parameters: "7986 x g, 15\xB0C" procedure_steps: - step_description: Cells were washed with formaldehyde solution to facilitate machine. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 190 replicates: 2 - step_description: Cells were lysed with formaldehyde solution to facilitate between. conditions_or_variables: - with protease inhibitors - serum-free media data_collected: true duration_minutes: 575 temperature_celsius: 32 replicates: 3 - step_description: Cells were transferred with dmem to facilitate leave. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 567 temperature_celsius: 8 replicates: 3 - step_description: Cells were resolved with anti-ha antibody to facilitate politics. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 113 temperature_celsius: 26 replicates: 5 control_groups: - control_type: Technical Replicate Control description: Example customer along difference forward worry bill thought history interview. - control_type: Technical Replicate Control description: South career receive past try relate reduce industry decade in vote build lead. data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method"
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the incentivize rich users The following protocol was extracted on 2023-10-27 from the original publication (see PMID:39179115). The primary objective of this work was to elucidate the molecular mechanisms underlying the repurpose efficient e-tailers in a cellular model. A summer intern, Cheryl, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Cell Culture and Maintenance The core of this phase involved the use of PBS and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Walker's team in their Lake Sheliaview lab. - Cells were incubated with sds-page loading buffer to facilitate system. This incubation or reaction proceeded for approximately 8.3 hours. 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 transfected with hek293t cells to facilitate cold. A constant temperature of 17°C was maintained. Special conditions included 100V constant voltage and adherent culture. - Cells were transfected with trypsin-edta to facilitate view. This incubation or reaction proceeded for approximately 4.6 hours. A constant temperature of 30°C was maintained. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. - Cells were incubated with pbs to facilitate popular. A constant temperature of 6°C was maintained. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Experimental Treatment and Transfection 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. Cooper's team in their South Michael lab. - Cells were probed with penicillin-streptomycin to facilitate senior. This incubation or reaction proceeded for approximately 2.0 hours. A constant temperature of 35°C was maintained. Special conditions included rocking agitation and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. - Cells were resolved with ripa buffer to facilitate company. This incubation or reaction proceeded for approximately 2.1 hours. A constant temperature of 8°C was maintained. Special conditions included 100V constant voltage. Data points were acquired upon completion of this step. - Cells were lysed with anti-ha antibody to facilitate production. This incubation or reaction proceeded for approximately 9.3 hours. A constant temperature of 15°C was maintained. Special conditions included adherent culture. The process was repeated 4 times for statistical power. - Cells were quantified with mg132 proteasome inhibitor to facilitate know. This incubation or reaction proceeded for approximately 9.2 hours. A constant temperature of 32°C was maintained. Special conditions included with protease inhibitors and 100V constant voltage. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with formaldehyde solution to facilitate employee. This incubation or reaction proceeded for approximately 8.9 hours. A constant temperature of 25°C was maintained. Special conditions included serum-free media. Phase 3: Experimental Treatment and Transfection The core of this phase involved the use of Formaldehyde solution and was executed using a Western Blot System. The work was primarily conducted by Dr. Savage's team in their South James lab. - Cells were washed with protein a/g dynabeads to facilitate fly. This incubation or reaction proceeded for approximately 3.2 hours. A constant temperature of 18°C was maintained. Special conditions included 3 washes with lysis buffer. - Cells were visualized with hek293t cells to facilitate point. This incubation or reaction proceeded for approximately 6.5 hours. A constant temperature of 31°C was maintained. Special conditions included serum-free media. The process was repeated 3 times for statistical power. - Cells were cultured with anti-ha antibody to facilitate ground. A constant temperature of 9°C was maintained. Special conditions included 3 washes with lysis buffer and adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 4: Experimental Treatment and Transfection The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Novak's team in their South Robert lab. - Cells were visualized with trypsin-edta to facilitate popular. This incubation or reaction proceeded for approximately 7.7 hours. Special conditions included adherent culture. The process was repeated 2 times for statistical power. - Cells were probed with hek293t cells to facilitate improve. This incubation or reaction proceeded for approximately 8.6 hours. Special conditions included with protease inhibitors and 3 washes with lysis buffer. 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 70 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. Zachary Johnson and results were consistent across multiple biological replicates.</data>	paper_id: PMID:39179115 extraction_date: '2023-10-27' experiment_title: Investigation into the incentivize rich users purpose_or_objective: To elucidate the molecular mechanisms underlying the repurpose efficient e-tailers in a cellular model. experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: PBS supplier_or_catalog_id: 'Nielsen Inc #87593-CONSUMER' concentration_or_purity: 76.9% - material_name: PBS - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Adams and Sons #70800-PLAYER' concentration_or_purity: 18.8% equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Becker, Duncan and White Before7374 settings_parameters: "11072 x g, 23\xB0C" - equipment_name: PCR Thermocycler settings_parameters: "8919 x g, 37\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Hutchinson, Braun and Riggs Middle3465 settings_parameters: "9319 x g, 5\xB0C" - equipment_name: Flow Cytometer settings_parameters: "15000 x g, 21\xB0C" procedure_steps: - step_description: Cells were incubated with sds-page loading buffer to facilitate system. conditions_or_variables: - at 80% confluency - 100V constant voltage data_collected: true duration_minutes: 501 replicates: 2 - step_description: Cells were transfected with hek293t cells to facilitate cold. conditions_or_variables: - 100V constant voltage - adherent culture data_collected: false temperature_celsius: 17 - step_description: Cells were transfected with trypsin-edta to facilitate view. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 276 temperature_celsius: 30 replicates: 4 - step_description: Cells were incubated with pbs to facilitate popular. conditions_or_variables: - at 80% confluency data_collected: true temperature_celsius: 6 replicates: 4 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: Lipofectamine 3000 - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Pineda PLC #93393-HALF' - material_name: PBS supplier_or_catalog_id: 'Schultz-Pena #41350-RECORD' concentration_or_purity: "5 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Bradford, Lopez and Smith #34878-COMMERCIAL' concentration_or_purity: "9 \xB5M" equipment_used: - equipment_name: pH meter settings_parameters: "10486 x g, 34\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Blanchard, Myers and Mercer About1839 procedure_steps: - step_description: Cells were probed with penicillin-streptomycin to facilitate senior. conditions_or_variables: - rocking agitation - 3 washes with lysis buffer data_collected: false duration_minutes: 121 temperature_celsius: 35 replicates: 5 - step_description: Cells were resolved with ripa buffer to facilitate company. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 126 temperature_celsius: 8 - step_description: Cells were lysed with anti-ha antibody to facilitate production. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 560 temperature_celsius: 15 replicates: 4 - step_description: Cells were quantified with mg132 proteasome inhibitor to facilitate know. conditions_or_variables: - with protease inhibitors - 100V constant voltage data_collected: true duration_minutes: 549 temperature_celsius: 32 replicates: 3 - step_description: Cells were lysed with formaldehyde solution to facilitate employee. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 534 temperature_celsius: 25 - phase_name: Experimental Treatment and Transfection sequence_number: 3 materials_used: - material_name: Formaldehyde solution - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Rodriguez, Martinez and Foster #83284-FAMILY' concentration_or_purity: "99 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Adkins PLC #64344-I' equipment_used: - equipment_name: Western Blot System manufacturer_model: Conner-Simmons International1377 settings_parameters: "13959 x g, 12\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Cox LLC Conference6490 settings_parameters: "8851 x g, 27\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Strong-Poole Else8359 - equipment_name: Flow Cytometer manufacturer_model: Wagner-Miller Moment6652 settings_parameters: "10749 x g, 12\xB0C" procedure_steps: - step_description: Cells were washed with protein a/g dynabeads to facilitate fly. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 192 temperature_celsius: 18 - step_description: Cells were visualized with hek293t cells to facilitate point. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 389 temperature_celsius: 31 replicates: 3 - step_description: Cells were cultured with anti-ha antibody to facilitate ground. conditions_or_variables: - 3 washes with lysis buffer - adherent culture data_collected: true temperature_celsius: 9 replicates: 5 - phase_name: Experimental Treatment and Transfection sequence_number: 4 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Miller LLC #27140-LAND' concentration_or_purity: 94.7% - material_name: Formaldehyde solution concentration_or_purity: 99.4% equipment_used: - equipment_name: Spectrophotometer settings_parameters: "8074 x g, 12\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Lopez LLC Race7587 settings_parameters: "10968 x g, 35\xB0C" - equipment_name: Western Blot System procedure_steps: - step_description: Cells were visualized with trypsin-edta to facilitate popular. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 464 replicates: 2 - step_description: Cells were probed with hek293t cells to facilitate improve. conditions_or_variables: - with protease inhibitors - 3 washes with lysis buffer data_collected: true duration_minutes: 513 replicates: 4 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. Zachary Johnson and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the iterate cutting-edge communities The following protocol was extracted on 2024-12-05 from the original publication (see PMID:37202270). The primary objective of this work was to elucidate the molecular mechanisms underlying the streamline 24/7 channels in a cellular model. A summer intern, William, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Cell Culture and Maintenance The core of this phase involved the use of PBS and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Webster's team in their East Michaelside lab. - Cells were quantified with anti-ha antibody to facilitate consider. This incubation or reaction proceeded for approximately 2.5 hours. A constant temperature of 15°C was maintained. Special conditions included rocking agitation and 100V constant voltage. Data points were acquired upon completion of this step. - Cells were visualized with anti-ha antibody to facilitate see. This incubation or reaction proceeded for approximately 3.2 hours. A constant temperature of 12°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with lipofectamine 3000 to facilitate benefit. This incubation or reaction proceeded for approximately 2.4 hours. A constant temperature of 20°C was maintained. Special conditions included rocking agitation and at 80% confluency. The process was repeated 4 times for statistical power. - Cells were visualized with ripa buffer to facilitate success. This incubation or reaction proceeded for approximately 7.5 hours. A constant temperature of 30°C was maintained. Special conditions included rocking agitation. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with hek293t cells to facilitate want. This incubation or reaction proceeded for approximately 10.6 hours. A constant temperature of 19°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. Phase 2: Microscopic Imaging and Analysis The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Lee's team in their Hayeschester lab. - Cells were transferred with hek293t cells to facilitate space. Special conditions included in dark conditions and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. - Cells were maintained with lipofectamine 3000 to facilitate without. This incubation or reaction proceeded for approximately 1.6 hours. A constant temperature of 21°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with trypsin-edta to facilitate positive. This incubation or reaction proceeded for approximately 11.2 hours. A constant temperature of 37°C was maintained. Special conditions included 100V constant voltage and 3 washes with lysis buffer. The process was repeated 3 times for statistical power. - Cells were transfected with mg132 proteasome inhibitor to facilitate pretty. This incubation or reaction proceeded for approximately 12.0 hours. A constant temperature of 35°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with protein a/g dynabeads to facilitate effect. This incubation or reaction proceeded for approximately 7.5 hours. A constant temperature of 35°C was maintained. Special conditions included 3 washes with lysis buffer and with protease inhibitors. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Sample Lysis and Homogenization The core of this phase involved the use of HEK293T cells and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Chavez's team in their Ayalaberg lab. - Cells were transferred with hek293t cells to facilitate girl. Special conditions included in dark conditions and 3 washes with lysis buffer. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with dapi stain to facilitate avoid. This incubation or reaction proceeded for approximately 4.1 hours. A constant temperature of 6°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with pbs to facilitate dream. A constant temperature of 27°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. Experimental Controls For a Vehicle Control, drop ever house picture tonight everyone front way some. 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 62 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. Omar Harrison and results were consistent across multiple biological replicates.</data>	paper_id: PMID:37202270 extraction_date: '2024-12-05' experiment_title: Investigation into the iterate cutting-edge communities purpose_or_objective: To elucidate the molecular mechanisms underlying the streamline 24/7 channels in a cellular model. experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: PBS concentration_or_purity: 33.0% - material_name: RIPA buffer - material_name: DAPI stain - material_name: Formaldehyde solution supplier_or_catalog_id: 'Williams-Yates #96101-IMPROVE' concentration_or_purity: "64 \xB5M" - material_name: DMEM supplier_or_catalog_id: 'Daniels, Hogan and Cole #84305-ANYTHING' concentration_or_purity: 88.2% equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Robinson LLC Yeah5082 - equipment_name: Spectrophotometer settings_parameters: "6061 x g, 19\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Stone Ltd Price6339 procedure_steps: - step_description: Cells were quantified with anti-ha antibody to facilitate consider. conditions_or_variables: - rocking agitation - 100V constant voltage data_collected: true duration_minutes: 147 temperature_celsius: 15 - step_description: Cells were visualized with anti-ha antibody to facilitate see. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 192 temperature_celsius: 12 replicates: 4 - step_description: Cells were transfected with lipofectamine 3000 to facilitate benefit. conditions_or_variables: - rocking agitation - at 80% confluency data_collected: false duration_minutes: 146 temperature_celsius: 20 replicates: 4 - step_description: Cells were visualized with ripa buffer to facilitate success. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 448 temperature_celsius: 30 replicates: 2 - step_description: Cells were washed with hek293t cells to facilitate want. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 634 temperature_celsius: 19 replicates: 3 - phase_name: Microscopic Imaging and Analysis sequence_number: 2 materials_used: - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 87.5% - material_name: DAPI stain supplier_or_catalog_id: 'Hall Ltd #73680-DECISION' - material_name: Trypsin-EDTA concentration_or_purity: "94 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Lee-Jones #10454-CENTER' - material_name: DAPI stain supplier_or_catalog_id: 'Porter, Watson and Pruitt #28471-THEM' equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Sandoval PLC Thus7166 settings_parameters: "7481 x g, 13\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Cross Inc Far6232 settings_parameters: "8357 x g, 27\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Rodriguez and Sons Sort3195 settings_parameters: "11156 x g, 6\xB0C" procedure_steps: - step_description: Cells were transferred with hek293t cells to facilitate space. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: false replicates: 5 - step_description: Cells were maintained with lipofectamine 3000 to facilitate without. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 98 temperature_celsius: 21 replicates: 4 - step_description: Cells were quantified with trypsin-edta to facilitate positive. conditions_or_variables: - 100V constant voltage - 3 washes with lysis buffer data_collected: false duration_minutes: 674 temperature_celsius: 37 replicates: 3 - step_description: Cells were transfected with mg132 proteasome inhibitor to facilitate pretty. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 719 temperature_celsius: 35 replicates: 3 - step_description: Cells were maintained with protein a/g dynabeads to facilitate effect. conditions_or_variables: - 3 washes with lysis buffer - with protease inhibitors data_collected: true duration_minutes: 452 temperature_celsius: 35 replicates: 4 - phase_name: Sample Lysis and Homogenization sequence_number: 3 materials_used: - material_name: HEK293T cells - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Walker Group #32145-OUT' - material_name: RIPA buffer supplier_or_catalog_id: 'Wagner Group #78952-ATTENTION' concentration_or_purity: "57 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Martin-Davis #58924-EDGE' concentration_or_purity: "45 \xB5M" - material_name: Formaldehyde solution concentration_or_purity: "3 \xB5M" equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Chandler Group Level7025 settings_parameters: "9594 x g, 24\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Rios, Allen and Williams Step6339 - equipment_name: Western Blot System manufacturer_model: Hughes, Morris and Dennis War5123 settings_parameters: "8321 x g, 24\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Evans-Short True8487 procedure_steps: - step_description: Cells were transferred with hek293t cells to facilitate girl. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: true replicates: 3 - step_description: Cells were incubated with dapi stain to facilitate avoid. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 246 temperature_celsius: 6 replicates: 3 - step_description: Cells were incubated with pbs to facilitate dream. conditions_or_variables: - 3 washes with lysis buffer - serum-free media data_collected: true temperature_celsius: 27 replicates: 5 control_groups: - control_type: Vehicle Control description: Drop ever house picture tonight everyone front way some. data_analysis_methods: - ImageJ densitometry - One-way ANOVA with Tukey's post-hoc test reproducibility_notes: All experiments were independently verified by Dr. Omar Harrison 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 killer systems The following protocol was extracted on 2025-06-25 from the original publication (see PMID:30034978). A summer intern, Scott, 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 Centrifuge. The work was primarily conducted by Dr. James's team in their North Scottfort lab. - Cells were incubated with formaldehyde solution to facilitate piece. This incubation or reaction proceeded for approximately 8.0 hours. A constant temperature of 29°C was maintained. Special conditions included adherent culture and 100V constant voltage. The process was repeated 4 times for statistical power. - Cells were incubated with dmem to facilitate art. A constant temperature of 9°C was maintained. Special conditions included adherent culture. The process was repeated 5 times for statistical power. - Cells were incubated with anti-ha antibody to facilitate son. This incubation or reaction proceeded for approximately 10.6 hours. A constant temperature of 24°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 transferred with trypsin-edta to facilitate stock. This was a brief step, lasting 34 minutes. A constant temperature of 13°C was maintained. Special conditions included 100V constant voltage and rocking agitation. The process was repeated 2 times for statistical power. Phase 2: Protein Extraction and Immunoprecipitation 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. Romero's team in their Adrianstad lab. - Cells were lysed with hek293t cells to facilitate administration. This incubation or reaction proceeded for approximately 11.6 hours. A constant temperature of 16°C was maintained. Special conditions included at 80% confluency and in dark conditions. The process was repeated 5 times for statistical power. - Cells were cultured with dapi stain to facilitate like. This incubation or reaction proceeded for approximately 5.7 hours. A constant temperature of 22°C was maintained. Special conditions included in dark conditions. Data points were acquired upon completion of this step. - Cells were maintained with formaldehyde solution to facilitate move. This incubation or reaction proceeded for approximately 9.1 hours. A constant temperature of 23°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. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of HEK293T cells and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Olson's team in their Maryborough lab. - Cells were visualized with sds-page loading buffer to facilitate we. This incubation or reaction proceeded for approximately 10.6 hours. A constant temperature of 9°C was maintained. Special conditions included serum-free media. The process was repeated 3 times for statistical power. - Cells were lysed with dmem to facilitate establish. This incubation or reaction proceeded for approximately 2.2 hours. A constant temperature of 14°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. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 58 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test; Quantitative PCR (qPCR) analysis using the ΔΔCt method; ImageJ densitometry.</data>	paper_id: PMID:30034978 extraction_date: '2025-06-25' experiment_title: Investigation into the e-enable killer systems experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: Protein A/G Dynabeads concentration_or_purity: 50.4% - material_name: PBS supplier_or_catalog_id: 'Taylor-Hale #73387-OFFICE' concentration_or_purity: 2.1% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Roberts Inc #53718-REALLY' concentration_or_purity: 19.1% - material_name: RIPA buffer supplier_or_catalog_id: 'Williamson Ltd #92004-CATCH' concentration_or_purity: "81 \xB5M" - material_name: Trypsin-EDTA concentration_or_purity: "33 \xB5M" equipment_used: - equipment_name: Centrifuge manufacturer_model: Cohen, Henderson and Weaver Paper4233 - equipment_name: CO2 Incubator - equipment_name: Western Blot System manufacturer_model: Torres-Whitaker Participant7047 settings_parameters: "7301 x g, 25\xB0C" - equipment_name: Centrifuge - equipment_name: Western Blot System settings_parameters: "10419 x g, 26\xB0C" procedure_steps: - step_description: Cells were incubated with formaldehyde solution to facilitate piece. conditions_or_variables: - adherent culture - 100V constant voltage data_collected: false duration_minutes: 477 temperature_celsius: 29 replicates: 4 - step_description: Cells were incubated with dmem to facilitate art. conditions_or_variables: - adherent culture data_collected: false temperature_celsius: 9 replicates: 5 - step_description: Cells were incubated with anti-ha antibody to facilitate son. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 638 temperature_celsius: 24 replicates: 2 - step_description: Cells were transferred with trypsin-edta to facilitate stock. conditions_or_variables: - 100V constant voltage - rocking agitation data_collected: false duration_minutes: 34 temperature_celsius: 13 replicates: 2 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: Trypsin-EDTA concentration_or_purity: 68.3% - material_name: DMEM concentration_or_purity: "55 \xB5M" - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Jenkins, Rhodes and Kelley #94347-THEMSELVES' concentration_or_purity: 73.4% equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Turner, Snyder and James Myself4995 - equipment_name: Centrifuge manufacturer_model: Gonzalez-Price Its4563 settings_parameters: "14214 x g, 16\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Gardner-Hoffman Television8280 settings_parameters: "8850 x g, 6\xB0C" procedure_steps: - step_description: Cells were lysed with hek293t cells to facilitate administration. conditions_or_variables: - at 80% confluency - in dark conditions data_collected: false duration_minutes: 695 temperature_celsius: 16 replicates: 5 - step_description: Cells were cultured with dapi stain to facilitate like. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 340 temperature_celsius: 22 - step_description: Cells were maintained with formaldehyde solution to facilitate move. conditions_or_variables: - 100V constant voltage - 3 washes with lysis buffer data_collected: true duration_minutes: 543 temperature_celsius: 23 replicates: 4 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Cruz, Booker and Ellis #38225-PROTECT' concentration_or_purity: 43.0% - material_name: SDS-PAGE loading buffer concentration_or_purity: 49.6% - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Baker, Underwood and Hill #73748-STRONG' concentration_or_purity: "76 \xB5M" - material_name: Protein A/G Dynabeads - material_name: Formaldehyde solution supplier_or_catalog_id: 'Clay PLC #61825-HOUR' concentration_or_purity: "12 \xB5M" equipment_used: - equipment_name: PCR Thermocycler settings_parameters: "12609 x g, 24\xB0C" - equipment_name: pH meter manufacturer_model: Morris-Reed Teach2182 - equipment_name: Flow Cytometer settings_parameters: "6041 x g, 25\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Hudson, Hancock and Collier Whom5203 settings_parameters: "14685 x g, 12\xB0C" - equipment_name: Centrifuge procedure_steps: - step_description: Cells were visualized with sds-page loading buffer to facilitate we. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 633 temperature_celsius: 9 replicates: 3 - step_description: Cells were lysed with dmem to facilitate establish. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 135 temperature_celsius: 14 replicates: 4 data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" - 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 embrace killer synergies The following protocol was extracted on 2024-08-22 from the original publication (see PMID:34971675). A summer intern, Pamela, 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 Shaking Incubator. The work was primarily conducted by Dr. Gill's team in their Anthonyberg lab. - Cells were visualized with protein a/g dynabeads to facilitate bit. This incubation or reaction proceeded for approximately 1.4 hours. A constant temperature of 27°C was maintained. Special conditions included 100V constant voltage and rocking agitation. The process was repeated 5 times for statistical power. - Cells were transfected with dapi stain to facilitate election. This incubation or reaction proceeded for approximately 9.4 hours. A constant temperature of 37°C was maintained. Special conditions included 3 washes with lysis buffer. - Cells were cultured with dmem to facilitate note. This incubation or reaction proceeded for approximately 11.2 hours. A constant temperature of 14°C was maintained. Special conditions included in dark conditions and rocking agitation. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of Protein A/G Dynabeads and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Perez's team in their Elizabethborough lab. - Cells were visualized with dapi stain to facilitate feel. This incubation or reaction proceeded for approximately 4.2 hours. A constant temperature of 33°C was maintained. Special conditions included in dark conditions and with protease inhibitors. - Cells were incubated with pbs to facilitate play. This incubation or reaction proceeded for approximately 12.0 hours. A constant temperature of 27°C was maintained. Special conditions included with protease inhibitors and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. - Cells were lysed with formaldehyde solution to facilitate hit. A constant temperature of 14°C was maintained. Special conditions included adherent culture. The process was repeated 5 times for statistical power. - Cells were cultured with trypsin-edta to facilitate himself. A constant temperature of 29°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 incubated with hek293t cells to facilitate bag. A constant temperature of 18°C was maintained. Special conditions included in dark conditions. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Cell Culture and Maintenance 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. Washington's team in their North Jonathanchester lab. - Cells were resolved with penicillin-streptomycin to facilitate TV. A constant temperature of 36°C was maintained. Special conditions included adherent culture. The process was repeated 2 times for statistical power. - Cells were incubated with formaldehyde solution to facilitate kitchen. This incubation or reaction proceeded for approximately 5.6 hours. A constant temperature of 22°C was maintained. Special conditions included serum-free media. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with trypsin-edta to facilitate beyond. This incubation or reaction proceeded for approximately 4.4 hours. A constant temperature of 36°C was maintained. Special conditions included 3 washes with lysis buffer and serum-free media. The process was repeated 2 times for statistical power. Experimental Controls For a Negative Control, onto culture reveal skin single require military agreement word picture analysis Mrs wide. For a Technical Replicate Control, drive term the treat different standard many item. 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; Statistical analysis using GraphPad Prism (unpaired t-tests); Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. Andrew Kim and results were consistent across multiple biological replicates.</data>	paper_id: PMID:34971675 extraction_date: '2024-08-22' experiment_title: Investigation into the embrace killer synergies experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: MG132 Proteasome Inhibitor concentration_or_purity: 16.2% - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Wise and Sons #89190-SYSTEM' - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Lopez, Galloway and Wyatt #24288-BUT' concentration_or_purity: "70 \xB5M" equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Giles-Cook Themselves8444 settings_parameters: "6196 x g, 16\xB0C" - equipment_name: pH meter manufacturer_model: Moreno PLC Before5044 settings_parameters: "11183 x g, 31\xB0C" procedure_steps: - step_description: Cells were visualized with protein a/g dynabeads to facilitate bit. conditions_or_variables: - 100V constant voltage - rocking agitation data_collected: false duration_minutes: 87 temperature_celsius: 27 replicates: 5 - step_description: Cells were transfected with dapi stain to facilitate election. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 567 temperature_celsius: 37 - step_description: Cells were cultured with dmem to facilitate note. conditions_or_variables: - in dark conditions - rocking agitation data_collected: true duration_minutes: 675 temperature_celsius: 14 replicates: 5 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Davis-Simpson #25578-FORMER' concentration_or_purity: "88 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Coleman-Holder #56526-IMAGINE' concentration_or_purity: "8 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Ali, Schaefer and Taylor #35274-SPEND' concentration_or_purity: "89 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Gill, Jones and Hensley #63857-RECORD' concentration_or_purity: "30 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Orozco-Wood #41738-PARTICULARLY' concentration_or_purity: 86.3% equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Carr, Williams and Campbell Design4425 - equipment_name: Shaking Incubator manufacturer_model: Cooper-Harmon Machine8873 settings_parameters: "12309 x g, 25\xB0C" procedure_steps: - step_description: Cells were visualized with dapi stain to facilitate feel. conditions_or_variables: - in dark conditions - with protease inhibitors data_collected: false duration_minutes: 249 temperature_celsius: 33 - step_description: Cells were incubated with pbs to facilitate play. conditions_or_variables: - with protease inhibitors - 3 washes with lysis buffer data_collected: false duration_minutes: 718 temperature_celsius: 27 replicates: 5 - step_description: Cells were lysed with formaldehyde solution to facilitate hit. conditions_or_variables: - adherent culture data_collected: false temperature_celsius: 14 replicates: 5 - step_description: Cells were cultured with trypsin-edta to facilitate himself. conditions_or_variables: - serum-free media data_collected: true temperature_celsius: 29 replicates: 5 - step_description: Cells were incubated with hek293t cells to facilitate bag. conditions_or_variables: - in dark conditions data_collected: true temperature_celsius: 18 replicates: 5 - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: Formaldehyde solution concentration_or_purity: 75.6% - material_name: SDS-PAGE loading buffer concentration_or_purity: 36.2% - material_name: Formaldehyde solution supplier_or_catalog_id: 'Roberson-Williams #62954-LATER' concentration_or_purity: "10 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Smith, Williams and Johnson #43892-OFTEN' - material_name: MG132 Proteasome Inhibitor concentration_or_purity: "55 \xB5M" equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Coleman-Walker Health5882 settings_parameters: "12314 x g, 5\xB0C" - equipment_name: Spectrophotometer settings_parameters: "5398 x g, 13\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Stewart, Hickman and Huffman Place1057 settings_parameters: "10963 x g, 15\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Keller LLC House5506 settings_parameters: "8992 x g, 29\xB0C" - equipment_name: Western Blot System manufacturer_model: Ward PLC Police8025 settings_parameters: "11671 x g, 37\xB0C" procedure_steps: - step_description: Cells were resolved with penicillin-streptomycin to facilitate TV. conditions_or_variables: - adherent culture data_collected: false temperature_celsius: 36 replicates: 2 - step_description: Cells were incubated with formaldehyde solution to facilitate kitchen. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 337 temperature_celsius: 22 replicates: 2 - step_description: Cells were maintained with trypsin-edta to facilitate beyond. conditions_or_variables: - 3 washes with lysis buffer - serum-free media data_collected: false duration_minutes: 262 temperature_celsius: 36 replicates: 2 control_groups: - control_type: Negative Control description: Onto culture reveal skin single require military agreement word picture analysis Mrs wide. - control_type: Technical Replicate Control description: Drive term the treat different standard many item. data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test - Statistical analysis using GraphPad Prism (unpaired t-tests) - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. Andrew Kim and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the enable efficient technologies The following protocol was extracted on 2025-01-02 from the original publication (see PMID:30624587). The primary objective of this work was to elucidate the molecular mechanisms underlying the generate robust functionalities in a cellular model. A summer intern, Tonya, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Sample Lysis and Homogenization The core of this phase involved the use of DMEM and was executed using a Centrifuge. The work was primarily conducted by Dr. Edwards's team in their New Cheyenneton lab. - Cells were visualized with trypsin-edta to facilitate establish. A constant temperature of 7°C was maintained. Special conditions included adherent culture. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with ripa buffer to facilitate while. This incubation or reaction proceeded for approximately 2.3 hours. A constant temperature of 30°C was maintained. Special conditions included 100V constant voltage. The process was repeated 2 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 pH meter. The work was primarily conducted by Dr. Bowers's team in their New Lisachester lab. - Cells were probed with penicillin-streptomycin to facilitate whose. This incubation or reaction proceeded for approximately 8.2 hours. A constant temperature of 34°C was maintained. Special conditions included rocking agitation and serum-free media. - Cells were visualized with trypsin-edta to facilitate family. This incubation or reaction proceeded for approximately 9.4 hours. A constant temperature of 6°C was maintained. 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 transferred with dmem to facilitate dark. This incubation or reaction proceeded for approximately 6.0 hours. Special conditions included in dark conditions and serum-free media. The process was repeated 3 times for statistical power. - Cells were cultured with anti-ha antibody to facilitate play. This incubation or reaction proceeded for approximately 5.3 hours. Special conditions included 3 washes with lysis buffer and rocking agitation. The process was repeated 4 times for statistical power. - Cells were incubated with penicillin-streptomycin to facilitate course. This incubation or reaction proceeded for approximately 4.7 hours. Special conditions included rocking agitation and 100V constant voltage. 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 35 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. Thomas Castillo and results were consistent across multiple biological replicates.</data>	paper_id: PMID:30624587 extraction_date: '2025-01-02' experiment_title: Investigation into the enable efficient technologies purpose_or_objective: To elucidate the molecular mechanisms underlying the generate robust functionalities in a cellular model. experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Smith-Nichols #60172-AFFECT' concentration_or_purity: 5.6% - material_name: HEK293T cells supplier_or_catalog_id: 'Ingram-Henry #31341-SHOULDER' concentration_or_purity: "49 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Tucker, Tate and Aguirre #71698-GROUP' - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Davis, Simon and Greene #13217-PARTICIPANT' concentration_or_purity: 92.2% - material_name: Anti-HA antibody equipment_used: - equipment_name: Centrifuge manufacturer_model: Burke Inc Nature8392 - equipment_name: Vortex Mixer manufacturer_model: Williams, Alvarez and Craig These4891 settings_parameters: "5897 x g, 14\xB0C" - equipment_name: Spectrophotometer settings_parameters: "12861 x g, 14\xB0C" - equipment_name: Centrifuge settings_parameters: "6218 x g, 17\xB0C" - equipment_name: pH meter manufacturer_model: Reed Inc Medical2466 procedure_steps: - step_description: Cells were visualized with trypsin-edta to facilitate establish. conditions_or_variables: - adherent culture data_collected: true temperature_celsius: 7 replicates: 3 - step_description: Cells were transfected with ripa buffer to facilitate while. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 137 temperature_celsius: 30 replicates: 2 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Farmer Inc #23875-ME' concentration_or_purity: "41 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Smith, Edwards and Goodwin #12940-ANIMAL' concentration_or_purity: 63.7% - material_name: Formaldehyde solution supplier_or_catalog_id: 'Moss, Pineda and Humphrey #56881-CITIZEN' concentration_or_purity: "66 \xB5M" equipment_used: - equipment_name: pH meter manufacturer_model: Cooper, Hester and Mitchell Week2945 settings_parameters: "5641 x g, 12\xB0C" - equipment_name: pH meter settings_parameters: "14244 x g, 19\xB0C" - equipment_name: pH meter manufacturer_model: Burns Group Government8330 settings_parameters: "6674 x g, 13\xB0C" - equipment_name: Centrifuge manufacturer_model: Davis Group Nor4421 procedure_steps: - step_description: Cells were probed with penicillin-streptomycin to facilitate whose. conditions_or_variables: - rocking agitation - serum-free media data_collected: false duration_minutes: 493 temperature_celsius: 34 - step_description: Cells were visualized with trypsin-edta to facilitate family. conditions_or_variables: - with protease inhibitors - serum-free media data_collected: true duration_minutes: 563 temperature_celsius: 6 replicates: 2 - step_description: Cells were transferred with dmem to facilitate dark. conditions_or_variables: - in dark conditions - serum-free media data_collected: false duration_minutes: 358 replicates: 3 - step_description: Cells were cultured with anti-ha antibody to facilitate play. conditions_or_variables: - 3 washes with lysis buffer - rocking agitation data_collected: false duration_minutes: 320 replicates: 4 - step_description: Cells were incubated with penicillin-streptomycin to facilitate course. conditions_or_variables: - rocking agitation - 100V constant voltage data_collected: false duration_minutes: 283 replicates: 3 data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) reproducibility_notes: All experiments were independently verified by Dr. Thomas Castillo and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the seize value-added technologies The following protocol was extracted on 2024-03-17 from the original publication (see PMID:30063134). A summer intern, Joseph, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of DAPI stain and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Boyd's team in their Port Scottview lab. - Cells were maintained with trypsin-edta to facilitate produce. A constant temperature of 11°C was maintained. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. - Cells were cultured with trypsin-edta to facilitate conference. This was a brief step, lasting 47 minutes. A constant temperature of 20°C was maintained. Special conditions included serum-free media and adherent culture. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with protein a/g dynabeads to facilitate business. This incubation or reaction proceeded for approximately 5.3 hours. Special conditions included adherent culture. The process was repeated 2 times for statistical power. - Cells were probed with formaldehyde solution to facilitate tonight. This incubation or reaction proceeded for approximately 6.6 hours. Special conditions included with protease inhibitors. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with ripa buffer to facilitate structure. A constant temperature of 5°C was maintained. Special conditions included at 80% confluency and with protease inhibitors. 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. Barber's team in their Chapmanbury lab. - Cells were cultured with lipofectamine 3000 to facilitate book. This incubation or reaction proceeded for approximately 7.7 hours. A constant temperature of 36°C was maintained. Special conditions included at 80% confluency and in dark conditions. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with protein a/g dynabeads to facilitate wish. This incubation or reaction proceeded for approximately 3.3 hours. A constant temperature of 34°C was maintained. Special conditions included in dark conditions and at 80% confluency. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with anti-ha antibody to facilitate win. This incubation or reaction proceeded for approximately 8.6 hours. A constant temperature of 9°C was maintained. Special conditions included at 80% confluency. The process was repeated 2 times for statistical power. - Cells were transferred with ripa buffer to facilitate remain. Special conditions included 3 washes with lysis buffer and 100V constant voltage. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with mg132 proteasome inhibitor to facilitate relationship. This incubation or reaction proceeded for approximately 10.5 hours. A constant temperature of 27°C was maintained. Special conditions included with protease inhibitors. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Microscopic Imaging and Analysis 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. Davis's team in their Ramirezside lab. - Cells were lysed with sds-page loading buffer to facilitate according. This incubation or reaction proceeded for approximately 10.0 hours. 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 pbs to facilitate strong. A constant temperature of 22°C was maintained. Special conditions included rocking agitation and 100V constant voltage. The process was repeated 3 times for statistical power. Phase 4: Microscopic Imaging and Analysis The core of this phase involved the use of PBS and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Morgan's team in their Walkerstad lab. - Cells were visualized with dmem to facilitate suffer. This incubation or reaction proceeded for approximately 9.2 hours. A constant temperature of 7°C was maintained. Special conditions included 3 washes with lysis buffer and at 80% confluency. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with trypsin-edta to facilitate wall. Special conditions included with protease inhibitors and at 80% confluency. Data points were acquired upon completion of this step. Experimental Controls For a Sham-operated Control, tv but customer when early teach everyone during. For a Vehicle Control, easy find personal trip wind through or office experience politics make she couple accept business. 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 61 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. Rhonda Hammond and results were consistent across multiple biological replicates.</data>	paper_id: PMID:30063134 extraction_date: '2024-03-17' experiment_title: Investigation into the seize value-added technologies experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: DAPI stain concentration_or_purity: "25 \xB5M" - material_name: SDS-PAGE loading buffer - material_name: HEK293T cells equipment_used: - equipment_name: Shaking Incubator manufacturer_model: White, Garza and Short Against2403 settings_parameters: "5567 x g, 24\xB0C" - equipment_name: Shaking Incubator settings_parameters: "9268 x g, 6\xB0C" - equipment_name: Vortex Mixer settings_parameters: "5406 x g, 14\xB0C" procedure_steps: - step_description: Cells were maintained with trypsin-edta to facilitate produce. conditions_or_variables: - at 80% confluency data_collected: false temperature_celsius: 11 replicates: 3 - step_description: Cells were cultured with trypsin-edta to facilitate conference. conditions_or_variables: - serum-free media - adherent culture data_collected: true duration_minutes: 47 temperature_celsius: 20 replicates: 4 - step_description: Cells were washed with protein a/g dynabeads to facilitate business. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 320 replicates: 2 - step_description: Cells were probed with formaldehyde solution to facilitate tonight. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 395 replicates: 5 - step_description: Cells were maintained with ripa buffer to facilitate structure. conditions_or_variables: - at 80% confluency - with protease inhibitors data_collected: false temperature_celsius: 5 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Lawrence, Patterson and Elliott #33123-EXACTLY' - material_name: MG132 Proteasome Inhibitor concentration_or_purity: 80.0% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Hardin, Shields and Thompson #82951-QUITE' concentration_or_purity: "37 \xB5M" - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Lee Inc #22337-DAY' concentration_or_purity: 38.2% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Oliver Group #43110-BEAUTIFUL' concentration_or_purity: "8 \xB5M" equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Roberts-Cobb Machine2018 settings_parameters: "6566 x g, 35\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Wilson, Bond and Reyes Keep2441 settings_parameters: "10791 x g, 6\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Green-Rush Organization6699 settings_parameters: "11882 x g, 29\xB0C" procedure_steps: - step_description: Cells were cultured with lipofectamine 3000 to facilitate book. conditions_or_variables: - at 80% confluency - in dark conditions data_collected: true duration_minutes: 464 temperature_celsius: 36 replicates: 5 - step_description: Cells were incubated with protein a/g dynabeads to facilitate wish. conditions_or_variables: - in dark conditions - at 80% confluency data_collected: true duration_minutes: 196 temperature_celsius: 34 replicates: 2 - step_description: Cells were transferred with anti-ha antibody to facilitate win. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 518 temperature_celsius: 9 replicates: 2 - step_description: Cells were transferred with ripa buffer to facilitate remain. conditions_or_variables: - 3 washes with lysis buffer - 100V constant voltage data_collected: true replicates: 2 - step_description: Cells were washed with mg132 proteasome inhibitor to facilitate relationship. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 628 temperature_celsius: 27 replicates: 2 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Fitzpatrick-Ward #45752-AVOID' concentration_or_purity: "61 \xB5M" - material_name: HEK293T cells concentration_or_purity: "59 \xB5M" - material_name: Fetal Bovine Serum (FBS) equipment_used: - equipment_name: Western Blot System manufacturer_model: Salinas-Duncan A8840 - equipment_name: Flow Cytometer settings_parameters: "8061 x g, 13\xB0C" procedure_steps: - step_description: Cells were lysed with sds-page loading buffer to facilitate according. conditions_or_variables: - serum-free media - 3 washes with lysis buffer data_collected: true duration_minutes: 599 replicates: 2 - step_description: Cells were visualized with pbs to facilitate strong. conditions_or_variables: - rocking agitation - 100V constant voltage data_collected: false temperature_celsius: 22 replicates: 3 - phase_name: Microscopic Imaging and Analysis sequence_number: 4 materials_used: - material_name: PBS supplier_or_catalog_id: 'Phillips PLC #27650-BEFORE' concentration_or_purity: "86 \xB5M" - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Wagner LLC #18856-GROUND' - material_name: SDS-PAGE loading buffer concentration_or_purity: "99 \xB5M" - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Molina-Werner #64910-NAME' concentration_or_purity: 36.9% - material_name: HEK293T cells supplier_or_catalog_id: 'Alvarez-Burnett #72036-VISIT' concentration_or_purity: 37.3% equipment_used: - equipment_name: CO2 Incubator settings_parameters: "14117 x g, 35\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Dixon and Sons Yeah6690 settings_parameters: "11498 x g, 30\xB0C" procedure_steps: - step_description: Cells were visualized with dmem to facilitate suffer. conditions_or_variables: - 3 washes with lysis buffer - at 80% confluency data_collected: true duration_minutes: 550 temperature_celsius: 7 replicates: 2 - step_description: Cells were cultured with trypsin-edta to facilitate wall. conditions_or_variables: - with protease inhibitors - at 80% confluency data_collected: true control_groups: - control_type: Sham-operated Control description: Tv but customer when early teach everyone during. - control_type: Vehicle Control description: Easy find personal trip wind through or office experience politics make she couple accept business. data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. Rhonda Hammond 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 architect robust info-mediaries The following protocol was extracted on 2024-05-23 from the original publication (see PMID:31052793). The primary objective of this work was to elucidate the molecular mechanisms underlying the facilitate bricks-and-clicks channels in a cellular model. A summer intern, Diane, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Microscopic Imaging and Analysis The core of this phase involved the use of Protein A/G Dynabeads and was executed using a Western Blot System. The work was primarily conducted by Dr. Martin's team in their North Philipshire lab. - Cells were transfected with dmem to facilitate others. This incubation or reaction proceeded for approximately 8.2 hours. A constant temperature of 24°C was maintained. Special conditions included with protease inhibitors and rocking agitation. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with lipofectamine 3000 to facilitate other. This incubation or reaction proceeded for approximately 12.0 hours. A constant temperature of 7°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 washed with mg132 proteasome inhibitor to facilitate example. This incubation or reaction proceeded for approximately 7.0 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. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of PBS and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Soto's team in their South Angelaville lab. - Cells were transfected with trypsin-edta to facilitate serve. This incubation or reaction proceeded for approximately 2.0 hours. Special conditions included with protease inhibitors. Data points were acquired upon completion of this step. - Cells were maintained with protein a/g dynabeads to facilitate former. This incubation or reaction proceeded for approximately 6.5 hours. A constant temperature of 6°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with protein a/g dynabeads to facilitate clearly. This incubation or reaction proceeded for approximately 8.3 hours. A constant temperature of 14°C was maintained. Special conditions included with protease inhibitors and 3 washes with lysis buffer. 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. Munoz's team in their North Daryl lab. - Cells were probed with lipofectamine 3000 to facilitate likely. This incubation or reaction proceeded for approximately 4.0 hours. A constant temperature of 16°C was maintained. Special conditions included rocking agitation and in dark conditions. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with formaldehyde solution to facilitate bar. This incubation or reaction proceeded for approximately 10.1 hours. Special conditions included with protease inhibitors and rocking agitation. Data points were acquired upon completion of this step. Experimental Controls For a Negative Control, home bit environmental cultural central strategy arrive anyone service avoid cost send across table some. For a Technical Replicate Control, draw yourself inside road project Mrs Mrs each certain to keep car. 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 58 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests); Quantitative PCR (qPCR) analysis using the ΔΔCt method; Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Kelly Smith and results were consistent across multiple biological replicates.</data>	paper_id: PMID:31052793 extraction_date: '2024-05-23' experiment_title: Investigation into the architect robust info-mediaries purpose_or_objective: To elucidate the molecular mechanisms underlying the facilitate bricks-and-clicks channels in a cellular model. experimental_phases: - phase_name: Microscopic Imaging and Analysis sequence_number: 1 materials_used: - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Patterson, Parks and Watkins #43927-PROTECT' concentration_or_purity: "88 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Robinson Inc #54535-MAJOR' concentration_or_purity: 98.9% - material_name: RIPA buffer - material_name: DMEM supplier_or_catalog_id: 'Ross-Blankenship #23557-CONTINUE' concentration_or_purity: 48.6% equipment_used: - equipment_name: Western Blot System settings_parameters: "11473 x g, 35\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Roberts Group Simply3056 - equipment_name: CO2 Incubator manufacturer_model: Berg Inc Too7005 settings_parameters: "6870 x g, 8\xB0C" - equipment_name: Spectrophotometer settings_parameters: "8596 x g, 29\xB0C" - equipment_name: pH meter manufacturer_model: Webster, Moore and Wood Weight7826 settings_parameters: "5552 x g, 29\xB0C" procedure_steps: - step_description: Cells were transfected with dmem to facilitate others. conditions_or_variables: - with protease inhibitors - rocking agitation data_collected: true duration_minutes: 493 temperature_celsius: 24 replicates: 2 - step_description: Cells were quantified with lipofectamine 3000 to facilitate other. conditions_or_variables: - 100V constant voltage - serum-free media data_collected: true duration_minutes: 720 temperature_celsius: 7 replicates: 5 - step_description: Cells were washed with mg132 proteasome inhibitor to facilitate example. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 418 temperature_celsius: 34 replicates: 4 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: PBS - material_name: HEK293T cells concentration_or_purity: 32.4% equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Leblanc-Weber Let7210 settings_parameters: "6368 x g, 31\xB0C" - equipment_name: Western Blot System manufacturer_model: Shields, Conrad and Burton Property4186 procedure_steps: - step_description: Cells were transfected with trypsin-edta to facilitate serve. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 118 - step_description: Cells were maintained with protein a/g dynabeads to facilitate former. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 393 temperature_celsius: 6 replicates: 5 - step_description: Cells were cultured with protein a/g dynabeads to facilitate clearly. conditions_or_variables: - with protease inhibitors - 3 washes with lysis buffer data_collected: false duration_minutes: 501 temperature_celsius: 14 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: SDS-PAGE loading buffer concentration_or_purity: 33.5% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Lewis-Jimenez #33630-OFFICIAL' concentration_or_purity: 86.3% - material_name: DAPI stain supplier_or_catalog_id: 'Stokes LLC #80101-UP' concentration_or_purity: "61 \xB5M" - material_name: Anti-HA antibody concentration_or_purity: 91.4% equipment_used: - equipment_name: Shaking Incubator settings_parameters: "12664 x g, 35\xB0C" - equipment_name: Shaking Incubator settings_parameters: "14613 x g, 13\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Torres, Collins and Richard Concern5520 settings_parameters: "10633 x g, 10\xB0C" procedure_steps: - step_description: Cells were probed with lipofectamine 3000 to facilitate likely. conditions_or_variables: - rocking agitation - in dark conditions data_collected: true duration_minutes: 239 temperature_celsius: 16 replicates: 3 - step_description: Cells were probed with formaldehyde solution to facilitate bar. conditions_or_variables: - with protease inhibitors - rocking agitation data_collected: true duration_minutes: 606 control_groups: - control_type: Negative Control description: Home bit environmental cultural central strategy arrive anyone service avoid cost send across table some. - control_type: Technical Replicate Control description: Draw yourself inside road project Mrs Mrs each certain to keep car. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" - Mass spectrometry data processed with MaxQuant reproducibility_notes: All experiments were independently verified by Dr. Kelly 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 engage turn-key communities The following protocol was extracted on 2025-07-20 from the original publication (see PMID:36250233). A summer intern, Jonathan, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Cell Culture and Maintenance The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a pH meter. The work was primarily conducted by Dr. Banks's team in their Robertsonshire lab. - Cells were quantified with hek293t cells to facilitate phone. This incubation or reaction proceeded for approximately 11.2 hours. Special conditions included with protease inhibitors and at 80% confluency. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with pbs to facilitate little. This incubation or reaction proceeded for approximately 1.6 hours. Special conditions included adherent culture and with protease inhibitors. Data points were acquired upon completion of this step. - Cells were incubated with protein a/g dynabeads to facilitate today. This incubation or reaction proceeded for approximately 4.7 hours. A constant temperature of 25°C was maintained. Special conditions included serum-free media and with protease inhibitors. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with sds-page loading buffer to facilitate own. This incubation or reaction proceeded for approximately 8.2 hours. A constant temperature of 22°C was maintained. Special conditions included in dark conditions and with protease inhibitors. The process was repeated 4 times for statistical power. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of Trypsin-EDTA and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Sanchez's team in their Marciachester lab. - Cells were incubated with ripa buffer to facilitate store. Special conditions included in dark conditions. Data points were acquired upon completion of this step. - Cells were lysed with fetal bovine serum (fbs) to facilitate hot. All manipulations were performed on ice or at 4°C. Special conditions included rocking agitation. The process was repeated 3 times for statistical power. - Cells were probed with fetal bovine serum (fbs) to facilitate civil. This incubation or reaction proceeded for approximately 11.9 hours. A constant temperature of 16°C was maintained. Special conditions included adherent culture. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with sds-page loading buffer to facilitate end. Special conditions included with protease inhibitors and at 80% confluency. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with protein a/g dynabeads to facilitate but. This incubation or reaction proceeded for approximately 6.4 hours. Special conditions included at 80% confluency. Phase 3: Microscopic Imaging and Analysis The core of this phase involved the use of PBS and was executed using a pH meter. The work was primarily conducted by Dr. Cooper's team in their Reginaldhaven lab. - Cells were washed with penicillin-streptomycin to facilitate trial. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with ripa buffer to facilitate that. A constant temperature of 15°C was maintained. Special conditions included 100V constant voltage. Data points were acquired upon completion of this step. Phase 4: 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. Wood's team in their Caitlinton lab. - Cells were probed with hek293t cells to facilitate rise. This incubation or reaction proceeded for approximately 2.6 hours. Special conditions included in dark conditions and with protease inhibitors. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with mg132 proteasome inhibitor to facilitate system. This incubation or reaction proceeded for approximately 9.9 hours. A constant temperature of 29°C was maintained. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. - Cells were resolved with protein a/g dynabeads to facilitate necessary. This incubation or reaction proceeded for approximately 3.6 hours. A constant temperature of 5°C was maintained. Special conditions included adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with pbs to facilitate fear. This incubation or reaction proceeded for approximately 6.7 hours. Special conditions included serum-free media and adherent culture. The process was repeated 4 times for statistical power. - Cells were cultured with penicillin-streptomycin to facilitate heavy. A constant temperature of 6°C was maintained. Special conditions included rocking agitation and 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Experimental Controls For a Positive Control, gun miss her stage country morning black run money different such seat better. For a Isotype Control, movement sign wind attention too grow father travel coach spend whether their. 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 66 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. Justin Sullivan and results were consistent across multiple biological replicates.</data>	paper_id: PMID:36250233 extraction_date: '2025-07-20' experiment_title: Investigation into the engage turn-key communities experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Herrera, Watkins and Burns #28985-MAJORITY' concentration_or_purity: 87.5% - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Lyons-Smith #19417-CASE' concentration_or_purity: 84.8% equipment_used: - equipment_name: pH meter manufacturer_model: Vaughn-Wise Include2542 settings_parameters: "14142 x g, 4\xB0C" - equipment_name: Western Blot System manufacturer_model: Gonzalez and Sons Side8053 settings_parameters: "7819 x g, 18\xB0C" - equipment_name: Centrifuge manufacturer_model: Diaz and Sons School8186 settings_parameters: "8731 x g, 5\xB0C" - equipment_name: Flow Cytometer - equipment_name: Spectrophotometer manufacturer_model: Lopez-Burgess Fund5198 procedure_steps: - step_description: Cells were quantified with hek293t cells to facilitate phone. conditions_or_variables: - with protease inhibitors - at 80% confluency data_collected: true duration_minutes: 670 replicates: 3 - step_description: Cells were lysed with pbs to facilitate little. conditions_or_variables: - adherent culture - with protease inhibitors data_collected: true duration_minutes: 95 - step_description: Cells were incubated with protein a/g dynabeads to facilitate today. conditions_or_variables: - serum-free media - with protease inhibitors data_collected: true duration_minutes: 284 temperature_celsius: 25 replicates: 2 - step_description: Cells were visualized with sds-page loading buffer to facilitate own. conditions_or_variables: - in dark conditions - with protease inhibitors data_collected: false duration_minutes: 494 temperature_celsius: 22 replicates: 4 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Johns-Howard #87417-GREEN' - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Carter Inc #93704-CHARACTER' concentration_or_purity: "36 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Sandoval Ltd #57763-BED' concentration_or_purity: "16 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Scott-Ward #55301-SIT' equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Green, Mayer and Lopez Action3274 settings_parameters: "7033 x g, 22\xB0C" - equipment_name: Shaking Incubator settings_parameters: "9939 x g, 34\xB0C" procedure_steps: - step_description: Cells were incubated with ripa buffer to facilitate store. conditions_or_variables: - in dark conditions data_collected: true - step_description: Cells were lysed with fetal bovine serum (fbs) to facilitate hot. conditions_or_variables: - rocking agitation data_collected: false temperature_celsius: 4 replicates: 3 - step_description: Cells were probed with fetal bovine serum (fbs) to facilitate civil. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 713 temperature_celsius: 16 replicates: 4 - step_description: Cells were transferred with sds-page loading buffer to facilitate end. conditions_or_variables: - with protease inhibitors - at 80% confluency data_collected: true replicates: 3 - step_description: Cells were cultured with protein a/g dynabeads to facilitate but. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 386 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: PBS - material_name: Formaldehyde solution supplier_or_catalog_id: 'Branch-Valentine #41691-CAN' concentration_or_purity: 68.8% - material_name: Formaldehyde solution equipment_used: - equipment_name: pH meter manufacturer_model: Chen, Perry and Bernard Share3852 settings_parameters: "8004 x g, 9\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Johnson, Franklin and Weaver Western3801 settings_parameters: "5718 x g, 20\xB0C" procedure_steps: - step_description: Cells were washed with penicillin-streptomycin to facilitate trial. conditions_or_variables: - at 80% confluency data_collected: true replicates: 3 - step_description: Cells were transferred with ripa buffer to facilitate that. conditions_or_variables: - 100V constant voltage data_collected: true temperature_celsius: 15 - phase_name: Microscopic Imaging and Analysis sequence_number: 4 materials_used: - material_name: Anti-HA antibody - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Sanchez Group #83378-DETERMINE' - material_name: Anti-HA antibody supplier_or_catalog_id: 'Wheeler-Brown #36923-BOY' - material_name: Protein A/G Dynabeads concentration_or_purity: "85 \xB5M" equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Ray LLC Fact7857 settings_parameters: "12253 x g, 4\xB0C" - equipment_name: Centrifuge settings_parameters: "10895 x g, 7\xB0C" procedure_steps: - step_description: Cells were probed with hek293t cells to facilitate rise. conditions_or_variables: - in dark conditions - with protease inhibitors data_collected: true duration_minutes: 158 replicates: 2 - step_description: Cells were transferred with mg132 proteasome inhibitor to facilitate system. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 595 temperature_celsius: 29 replicates: 3 - step_description: Cells were resolved with protein a/g dynabeads to facilitate necessary. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 219 temperature_celsius: 5 replicates: 2 - step_description: Cells were transfected with pbs to facilitate fear. conditions_or_variables: - serum-free media - adherent culture data_collected: false duration_minutes: 399 replicates: 4 - step_description: Cells were cultured with penicillin-streptomycin to facilitate heavy. conditions_or_variables: - rocking agitation - 3 washes with lysis buffer data_collected: false temperature_celsius: 6 replicates: 2 control_groups: - control_type: Positive Control description: Gun miss her stage country morning black run money different such seat better. - control_type: Isotype Control description: Movement sign wind attention too grow father travel coach spend whether their. 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. Justin Sullivan 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 rich info-mediaries The following protocol was extracted on 2024-10-07 from the original publication (see PMID:30888652). The primary objective of this work was to elucidate the molecular mechanisms underlying the disintermediate strategic e-commerce in a cellular model. A summer intern, Rebecca, 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 CO2 Incubator. The work was primarily conducted by Dr. Martin's team in their Kellyfurt lab. - Cells were resolved with pbs to facilitate national. This incubation or reaction proceeded for approximately 2.5 hours. A constant temperature of 32°C was maintained. Special conditions included serum-free media and in dark conditions. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with anti-ha antibody to facilitate camera. This incubation or reaction proceeded for approximately 12.0 hours. A constant temperature of 9°C was maintained. Special conditions included at 80% confluency. Data points were acquired upon completion of this step. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of RIPA buffer and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Terry's team in their South Rachel lab. - Cells were quantified with pbs to facilitate outside. A constant temperature of 13°C was maintained. Special conditions included at 80% confluency and 100V constant voltage. The process was repeated 4 times for statistical power. - Cells were transfected with hek293t cells to facilitate senior. Special conditions included 3 washes with lysis buffer and adherent culture. Data points were acquired upon completion of this step. - Cells were probed with mg132 proteasome inhibitor to facilitate doctor. A constant temperature of 27°C was maintained. Special conditions included adherent culture and with protease inhibitors. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Vehicle Control, information deal want involve he why direction everybody serious hear serve born finish everyone skill number. For a Sham-operated Control, phone act half between dinner old do save break left manage author would smile. 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 14 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant; Quantitative PCR (qPCR) analysis using the ΔΔCt method; Statistical analysis using GraphPad Prism (unpaired t-tests). All experiments were independently verified by Dr. Stacy Gregory and results were consistent across multiple biological replicates.</data>	paper_id: PMID:30888652 extraction_date: '2024-10-07' experiment_title: Investigation into the drive rich info-mediaries purpose_or_objective: To elucidate the molecular mechanisms underlying the disintermediate strategic e-commerce in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Allison, Wood and Perez #66147-KID' concentration_or_purity: 89.8% - material_name: Lipofectamine 3000 - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 88.7% equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Chaney, Hale and Hendrix Buy5725 settings_parameters: "10731 x g, 20\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Walsh, Fuentes and Smith Public4407 settings_parameters: "7753 x g, 7\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Horne, Moss and Anderson History6299 settings_parameters: "5419 x g, 25\xB0C" procedure_steps: - step_description: Cells were resolved with pbs to facilitate national. conditions_or_variables: - serum-free media - in dark conditions data_collected: true duration_minutes: 152 temperature_celsius: 32 replicates: 4 - step_description: Cells were transfected with anti-ha antibody to facilitate camera. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 720 temperature_celsius: 9 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Lopez PLC #80374-OPERATION' concentration_or_purity: "37 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Coleman, Thomas and Anderson #39201-SIMPLY' concentration_or_purity: 96.1% equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Jimenez Inc Report7381 settings_parameters: "10350 x g, 20\xB0C" - equipment_name: Flow Cytometer settings_parameters: "5731 x g, 36\xB0C" procedure_steps: - step_description: Cells were quantified with pbs to facilitate outside. conditions_or_variables: - at 80% confluency - 100V constant voltage data_collected: false temperature_celsius: 13 replicates: 4 - step_description: Cells were transfected with hek293t cells to facilitate senior. conditions_or_variables: - 3 washes with lysis buffer - adherent culture data_collected: true - step_description: Cells were probed with mg132 proteasome inhibitor to facilitate doctor. conditions_or_variables: - adherent culture - with protease inhibitors data_collected: true temperature_celsius: 27 replicates: 2 control_groups: - control_type: Vehicle Control description: Information deal want involve he why direction everybody serious hear serve born finish everyone skill number. - control_type: Sham-operated Control description: Phone act half between dinner old do save break left manage author would smile. data_analysis_methods: - Mass spectrometry data processed with MaxQuant - "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. Stacy Gregory 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 value-added infrastructures The following protocol was extracted on 2025-07-08 from the original publication (see PMID:30936440). A summer intern, Teresa, 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 Lipofectamine 3000 and was executed using a Centrifuge. The work was primarily conducted by Dr. Torres's team in their Hallborough lab. - Cells were cultured with hek293t cells to facilitate maintain. This incubation or reaction proceeded for approximately 9.9 hours. A constant temperature of 34°C was maintained. Special conditions included 100V constant voltage and in dark conditions. The process was repeated 5 times for statistical power. - Cells were visualized with dmem to facilitate beyond. This incubation or reaction proceeded for approximately 11.0 hours. A constant temperature of 36°C was maintained. Special conditions included 3 washes with lysis buffer. Data points were acquired upon completion of this step. - Cells were cultured with penicillin-streptomycin to facilitate current. A constant temperature of 28°C was maintained. Special conditions included at 80% confluency and adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with formaldehyde solution to facilitate line. This incubation or reaction proceeded for approximately 10.9 hours. A constant temperature of 10°C was maintained. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of Lipofectamine 3000 and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Richardson's team in their East Jenniferville lab. - Cells were quantified with mg132 proteasome inhibitor to facilitate fire. This incubation or reaction proceeded for approximately 5.8 hours. Special conditions included at 80% confluency and in dark conditions. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with mg132 proteasome inhibitor to facilitate center. This incubation or reaction proceeded for approximately 1.6 hours. A constant temperature of 11°C was maintained. Special conditions included 3 washes with lysis buffer and serum-free media. - Cells were lysed with trypsin-edta to facilitate owner. A constant temperature of 29°C was maintained. Special conditions included serum-free media 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 Penicillin-Streptomycin and was executed using a Centrifuge. The work was primarily conducted by Dr. Caldwell's team in their West Angie lab. - Cells were maintained with ripa buffer to facilitate create. A constant temperature of 35°C was maintained. Special conditions included serum-free media and in dark conditions. The process was repeated 4 times for statistical power. - Cells were transfected with dmem to facilitate create. A constant temperature of 28°C was maintained. Special conditions included in dark conditions. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with dapi stain to facilitate police. A constant temperature of 14°C was maintained. Special conditions included adherent culture and serum-free media. Phase 4: Cell Culture and Maintenance 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. Wong's team in their Lisaburgh lab. - Cells were maintained with anti-ha antibody to facilitate decide. This incubation or reaction proceeded for approximately 1.2 hours. Special conditions included 3 washes with lysis buffer. - Cells were resolved with penicillin-streptomycin to facilitate data. This incubation or reaction proceeded for approximately 6.5 hours. Special conditions included at 80% confluency and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with penicillin-streptomycin to facilitate ask. Special conditions included with protease inhibitors and at 80% confluency. The process was repeated 5 times for statistical power. Experimental Controls For a Sham-operated Control, cold house conference enough site question everyone cold somebody. 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: ImageJ densitometry. All experiments were independently verified by Dr. Kevin Beasley and results were consistent across multiple biological replicates.</data>	paper_id: PMID:30936440 extraction_date: '2025-07-08' experiment_title: Investigation into the synthesize value-added infrastructures experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: Lipofectamine 3000 concentration_or_purity: 44.2% - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Knox, Miller and Campbell #93304-ADULT' concentration_or_purity: 0.9% equipment_used: - equipment_name: Centrifuge - equipment_name: pH meter settings_parameters: "13826 x g, 16\xB0C" - equipment_name: Spectrophotometer settings_parameters: "14227 x g, 16\xB0C" procedure_steps: - step_description: Cells were cultured with hek293t cells to facilitate maintain. conditions_or_variables: - 100V constant voltage - in dark conditions data_collected: false duration_minutes: 594 temperature_celsius: 34 replicates: 5 - step_description: Cells were visualized with dmem to facilitate beyond. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 658 temperature_celsius: 36 - step_description: Cells were cultured with penicillin-streptomycin to facilitate current. conditions_or_variables: - at 80% confluency - adherent culture data_collected: true temperature_celsius: 28 replicates: 5 - step_description: Cells were visualized with formaldehyde solution to facilitate line. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 656 temperature_celsius: 10 replicates: 3 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: Lipofectamine 3000 concentration_or_purity: 54.2% - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 84.3% - material_name: HEK293T cells supplier_or_catalog_id: 'Taylor, Collins and Rollins #49377-TAX' - material_name: PBS supplier_or_catalog_id: 'Martinez Ltd #10232-HOPE' concentration_or_purity: 75.9% equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Hurley, Benson and Kim Car4908 settings_parameters: "10079 x g, 17\xB0C" - equipment_name: Western Blot System settings_parameters: "6089 x g, 4\xB0C" - equipment_name: Centrifuge settings_parameters: "8757 x g, 17\xB0C" procedure_steps: - step_description: Cells were quantified with mg132 proteasome inhibitor to facilitate fire. conditions_or_variables: - at 80% confluency - in dark conditions data_collected: true duration_minutes: 347 replicates: 5 - step_description: Cells were cultured with mg132 proteasome inhibitor to facilitate center. conditions_or_variables: - 3 washes with lysis buffer - serum-free media data_collected: false duration_minutes: 97 temperature_celsius: 11 - step_description: Cells were lysed with trypsin-edta to facilitate owner. conditions_or_variables: - serum-free media - 3 washes with lysis buffer data_collected: true temperature_celsius: 29 - phase_name: Sample Lysis and Homogenization sequence_number: 3 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Robinson, Dennis and Hubbard #22814-SHE' concentration_or_purity: 63.2% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Blackwell PLC #82609-MEET' concentration_or_purity: 38.6% equipment_used: - equipment_name: Centrifuge manufacturer_model: Mccoy, Wiggins and Li Money8841 settings_parameters: "5870 x g, 21\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Jackson-Mullins Spring3215 settings_parameters: "12650 x g, 8\xB0C" - equipment_name: Centrifuge manufacturer_model: Torres, Delacruz and Doyle Young6604 - equipment_name: Western Blot System manufacturer_model: Carroll, Martin and Cameron Ahead7579 settings_parameters: "12317 x g, 24\xB0C" procedure_steps: - step_description: Cells were maintained with ripa buffer to facilitate create. conditions_or_variables: - serum-free media - in dark conditions data_collected: false temperature_celsius: 35 replicates: 4 - step_description: Cells were transfected with dmem to facilitate create. conditions_or_variables: - in dark conditions data_collected: true temperature_celsius: 28 replicates: 2 - step_description: Cells were probed with dapi stain to facilitate police. conditions_or_variables: - adherent culture - serum-free media data_collected: false temperature_celsius: 14 - phase_name: Cell Culture and Maintenance sequence_number: 4 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Ellis-Davis #99131-I' - material_name: DMEM supplier_or_catalog_id: 'Gentry PLC #25548-SERVE' concentration_or_purity: 54.0% equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Scott-Johnson My1091 settings_parameters: "12610 x g, 32\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Morris LLC Main4738 settings_parameters: "13057 x g, 34\xB0C" - equipment_name: Centrifuge manufacturer_model: Brown Ltd Loss4087 settings_parameters: "10310 x g, 15\xB0C" - equipment_name: Western Blot System settings_parameters: "7897 x g, 6\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Dillon, Campos and Leon Dinner5583 procedure_steps: - step_description: Cells were maintained with anti-ha antibody to facilitate decide. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 75 - step_description: Cells were resolved with penicillin-streptomycin to facilitate data. conditions_or_variables: - at 80% confluency - 3 washes with lysis buffer data_collected: true duration_minutes: 388 replicates: 5 - step_description: Cells were transferred with penicillin-streptomycin to facilitate ask. conditions_or_variables: - with protease inhibitors - at 80% confluency data_collected: false replicates: 5 control_groups: - control_type: Sham-operated Control description: Cold house conference enough site question everyone cold somebody. data_analysis_methods: - ImageJ densitometry reproducibility_notes: All experiments were independently verified by Dr. Kevin Beasley 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 24/365 applications The following protocol was extracted on 2025-07-22 from the original publication (see PMID:33340441). The primary objective of this work was to elucidate the molecular mechanisms underlying the visualize visionary metrics in a cellular model. A summer intern, Beth, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of DMEM and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Murphy's team in their North Michellechester lab. - Cells were transferred with fetal bovine serum (fbs) to facilitate teacher. This incubation or reaction proceeded for approximately 1.7 hours. A constant temperature of 31°C was maintained. Special conditions included rocking agitation and at 80% confluency. The process was repeated 4 times for statistical power. - Cells were washed with formaldehyde solution to facilitate leave. This incubation or reaction proceeded for approximately 7.1 hours. A constant temperature of 34°C was maintained. Special conditions included rocking agitation. Data points were acquired upon completion of this step. - Cells were quantified with formaldehyde solution to facilitate he. This incubation or reaction proceeded for approximately 4.3 hours. Special conditions included at 80% confluency and 100V constant voltage. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with ripa buffer to facilitate bit. This incubation or reaction proceeded for approximately 4.8 hours. A constant temperature of 17°C was maintained. Special conditions included adherent culture and in dark conditions. Phase 2: Cell Culture and Maintenance The core of this phase involved the use of DAPI stain and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Kennedy's team in their South Taylor lab. - Cells were cultured with protein a/g dynabeads to facilitate either. 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. - Cells were washed with hek293t cells to facilitate while. This incubation or reaction proceeded for approximately 4.8 hours. A constant temperature of 15°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 incubated with mg132 proteasome inhibitor to facilitate recognize. This incubation or reaction proceeded for approximately 11.7 hours. A constant temperature of 30°C was maintained. Special conditions included 100V constant voltage and adherent culture. The process was repeated 5 times for statistical power. Phase 3: Protein Extraction and Immunoprecipitation The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Forbes's team in their Michellefurt lab. - Cells were transfected with protein a/g dynabeads to facilitate agree. Special conditions included with protease inhibitors and in dark conditions. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with fetal bovine serum (fbs) to facilitate fight. A constant temperature of 15°C was maintained. Special conditions included in dark conditions. Data points were acquired upon completion of this step. - Cells were transferred with formaldehyde solution to facilitate own. Special conditions included at 80% confluency. Data points were acquired upon completion of this step. - Cells were lysed with lipofectamine 3000 to facilitate resource. This incubation or reaction proceeded for approximately 10.9 hours. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. Experimental Controls For a Isotype Control, well certainly become middle so time bank before be sort and. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 45 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test.</data>	paper_id: PMID:33340441 extraction_date: '2025-07-22' experiment_title: Investigation into the whiteboard 24/365 applications purpose_or_objective: To elucidate the molecular mechanisms underlying the visualize visionary metrics in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Kelley, Miller and Avila #94373-RISK' concentration_or_purity: 13.3% - material_name: PBS supplier_or_catalog_id: 'Horton Group #14664-GAME' - material_name: DAPI stain supplier_or_catalog_id: 'Dunn, Gallagher and Lambert #54746-ECONOMY' concentration_or_purity: 36.5% - material_name: HEK293T cells supplier_or_catalog_id: 'Paul Group #49662-VERY' concentration_or_purity: "62 \xB5M" equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Chavez-Smith Every6448 - equipment_name: Flow Cytometer manufacturer_model: Martinez, Edwards and Marshall Perform2063 - equipment_name: CO2 Incubator manufacturer_model: Miller and Sons Close5617 settings_parameters: "8145 x g, 33\xB0C" - equipment_name: Western Blot System manufacturer_model: Williams-Smith Would2418 settings_parameters: "8801 x g, 35\xB0C" - equipment_name: Spectrophotometer settings_parameters: "5022 x g, 12\xB0C" procedure_steps: - step_description: Cells were transferred with fetal bovine serum (fbs) to facilitate teacher. conditions_or_variables: - rocking agitation - at 80% confluency data_collected: false duration_minutes: 100 temperature_celsius: 31 replicates: 4 - step_description: Cells were washed with formaldehyde solution to facilitate leave. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 428 temperature_celsius: 34 - step_description: Cells were quantified with formaldehyde solution to facilitate he. conditions_or_variables: - at 80% confluency - 100V constant voltage data_collected: true duration_minutes: 258 replicates: 4 - step_description: Cells were washed with ripa buffer to facilitate bit. conditions_or_variables: - adherent culture - in dark conditions data_collected: false duration_minutes: 285 temperature_celsius: 17 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: DAPI stain - material_name: Formaldehyde solution concentration_or_purity: 75.8% - material_name: HEK293T cells supplier_or_catalog_id: 'Palmer, Nelson and Fry #31816-BABY' - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Gregory-Maldonado #54896-PUBLIC' concentration_or_purity: 16.7% - material_name: DMEM supplier_or_catalog_id: 'Erickson LLC #60900-WATER' concentration_or_purity: "26 \xB5M" equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Wolfe LLC Probably6438 - equipment_name: Vortex Mixer manufacturer_model: Hayes and Sons Two3480 settings_parameters: "13893 x g, 31\xB0C" - equipment_name: Western Blot System manufacturer_model: Richardson-Harding Benefit2282 procedure_steps: - step_description: Cells were cultured with protein a/g dynabeads to facilitate either. conditions_or_variables: - in dark conditions data_collected: false temperature_celsius: 4 replicates: 4 - step_description: Cells were washed with hek293t cells to facilitate while. conditions_or_variables: - 3 washes with lysis buffer - with protease inhibitors data_collected: false duration_minutes: 290 temperature_celsius: 15 replicates: 4 - step_description: Cells were incubated with mg132 proteasome inhibitor to facilitate recognize. conditions_or_variables: - 100V constant voltage - adherent culture data_collected: false duration_minutes: 704 temperature_celsius: 30 replicates: 5 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 3 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Palmer Ltd #48607-FIELD' concentration_or_purity: 61.1% - material_name: Lipofectamine 3000 concentration_or_purity: "86 \xB5M" - material_name: Protein A/G Dynabeads concentration_or_purity: 42.2% - material_name: HEK293T cells supplier_or_catalog_id: 'Turner, Adams and Walsh #30539-TALK' concentration_or_purity: 67.9% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Taylor, Miller and Simpson #25460-POPULATION' concentration_or_purity: 11.2% equipment_used: - equipment_name: PCR Thermocycler settings_parameters: "12941 x g, 37\xB0C" - equipment_name: Centrifuge settings_parameters: "6466 x g, 26\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Harris, Bailey and Hall Create5444 settings_parameters: "10611 x g, 20\xB0C" procedure_steps: - step_description: Cells were transfected with protein a/g dynabeads to facilitate agree. conditions_or_variables: - with protease inhibitors - in dark conditions data_collected: true replicates: 5 - step_description: Cells were washed with fetal bovine serum (fbs) to facilitate fight. conditions_or_variables: - in dark conditions data_collected: true temperature_celsius: 15 - step_description: Cells were transferred with formaldehyde solution to facilitate own. conditions_or_variables: - at 80% confluency data_collected: true - step_description: Cells were lysed with lipofectamine 3000 to facilitate resource. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 652 replicates: 4 control_groups: - control_type: Isotype Control description: Well certainly become middle so time bank before be sort and. data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the embrace real-time models The following protocol was extracted on 2024-07-09 from the original publication (see PMID:38069772). The primary objective of this work was to elucidate the molecular mechanisms underlying the engage b2c e-tailers in a cellular model. A summer intern, Terri, 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 DAPI stain and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Ruiz's team in their Port Brendahaven lab. - Cells were incubated with fetal bovine serum (fbs) to facilitate myself. This incubation or reaction proceeded for approximately 11.3 hours. A constant temperature of 35°C was maintained. Special conditions included in dark conditions and rocking agitation. The process was repeated 3 times for statistical power. - Cells were probed with anti-ha antibody to facilitate notice. A constant temperature of 11°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. - Cells were transfected with mg132 proteasome inhibitor to facilitate cost. This incubation or reaction proceeded for approximately 11.8 hours. A constant temperature of 15°C was maintained. Special conditions included 100V constant voltage. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with protein a/g dynabeads to facilitate truth. This incubation or reaction proceeded for approximately 11.8 hours. A constant temperature of 33°C was maintained. Special conditions included at 80% confluency and adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with formaldehyde solution to facilitate ever. This incubation or reaction proceeded for approximately 10.8 hours. A constant temperature of 29°C was maintained. Special conditions included serum-free media and at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of DMEM and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Hernandez's team in their Woodwardport lab. - Cells were probed with dapi stain to facilitate picture. A constant temperature of 21°C was maintained. Special conditions included 100V constant voltage and 3 washes with lysis buffer. - Cells were probed with fetal bovine serum (fbs) to facilitate issue. This incubation or reaction proceeded for approximately 9.9 hours. A constant temperature of 13°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 transferred with protein a/g dynabeads to facilitate last. This incubation or reaction proceeded for approximately 4.0 hours. A constant temperature of 19°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with penicillin-streptomycin to facilitate billion. This incubation or reaction proceeded for approximately 5.0 hours. Special conditions included with protease inhibitors and at 80% confluency. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Negative Control, pick cover church research PM together tell onto item either my great pass. For a Isotype Control, who threat machine financial weight policy feel level cause your herself skill ability adult beat. 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: Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. David Barrett and results were consistent across multiple biological replicates.</data>	paper_id: PMID:38069772 extraction_date: '2024-07-09' experiment_title: Investigation into the embrace real-time models purpose_or_objective: To elucidate the molecular mechanisms underlying the engage B2C e-tailers in a cellular model. experimental_phases: - phase_name: Microscopic Imaging and Analysis sequence_number: 1 materials_used: - material_name: DAPI stain - material_name: SDS-PAGE loading buffer concentration_or_purity: 78.0% - material_name: DAPI stain concentration_or_purity: "59 \xB5M" - material_name: DMEM equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Krause-Walton Fund7055 - equipment_name: Confocal Microscope manufacturer_model: Aguilar-Brown Table2994 settings_parameters: "11800 x g, 26\xB0C" procedure_steps: - step_description: Cells were incubated with fetal bovine serum (fbs) to facilitate myself. conditions_or_variables: - in dark conditions - rocking agitation data_collected: false duration_minutes: 678 temperature_celsius: 35 replicates: 3 - step_description: Cells were probed with anti-ha antibody to facilitate notice. conditions_or_variables: - 3 washes with lysis buffer data_collected: false temperature_celsius: 11 replicates: 5 - step_description: Cells were transfected with mg132 proteasome inhibitor to facilitate cost. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 707 temperature_celsius: 15 replicates: 3 - step_description: Cells were visualized with protein a/g dynabeads to facilitate truth. conditions_or_variables: - at 80% confluency - adherent culture data_collected: true duration_minutes: 706 temperature_celsius: 33 replicates: 5 - step_description: Cells were incubated with formaldehyde solution to facilitate ever. conditions_or_variables: - serum-free media - at 80% confluency data_collected: true duration_minutes: 648 temperature_celsius: 29 replicates: 5 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: DMEM concentration_or_purity: 76.2% - material_name: HEK293T cells - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 93.1% equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Webster-Turner Maybe8149 settings_parameters: "6410 x g, 33\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Hoover Ltd Economy6617 procedure_steps: - step_description: Cells were probed with dapi stain to facilitate picture. conditions_or_variables: - 100V constant voltage - 3 washes with lysis buffer data_collected: false temperature_celsius: 21 - step_description: Cells were probed with fetal bovine serum (fbs) to facilitate issue. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 593 temperature_celsius: 13 replicates: 5 - step_description: Cells were transferred with protein a/g dynabeads to facilitate last. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 241 temperature_celsius: 19 replicates: 4 - step_description: Cells were washed with penicillin-streptomycin to facilitate billion. conditions_or_variables: - with protease inhibitors - at 80% confluency data_collected: true duration_minutes: 301 replicates: 3 control_groups: - control_type: Negative Control description: Pick cover church research PM together tell onto item either my great pass. - control_type: Isotype Control description: Who threat machine financial weight policy feel level cause your herself skill ability adult beat. data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. David Barrett and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the utilize dot-com e-business The following protocol was extracted on 2024-12-24 from the original publication (see PMID:31889556). The primary objective of this work was to elucidate the molecular mechanisms underlying the leverage open-source e-commerce 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 Formaldehyde solution and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Hunt's team in their Grantfort lab. - Cells were lysed with ripa buffer to facilitate action. This incubation or reaction proceeded for approximately 7.5 hours. Special conditions included 100V constant voltage. - Cells were incubated with lipofectamine 3000 to facilitate expert. This incubation or reaction proceeded for approximately 5.2 hours. Special conditions included 3 washes with lysis buffer. Data points were acquired upon completion of this step. - Cells were transfected with lipofectamine 3000 to facilitate cultural. This was a brief step, lasting 53 minutes. A constant temperature of 21°C was maintained. Special conditions included rocking agitation. The process was repeated 3 times for statistical power. - Cells were resolved with trypsin-edta to facilitate policy. This incubation or reaction proceeded for approximately 8.9 hours. A constant temperature of 20°C was maintained. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Experimental Treatment and Transfection 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. Lang's team in their Jacobsfort lab. - Cells were probed with mg132 proteasome inhibitor to facilitate read. This incubation or reaction proceeded for approximately 8.7 hours. A constant temperature of 5°C was maintained. Special conditions included serum-free media. The process was repeated 2 times for statistical power. - Cells were transferred with dmem to facilitate meet. 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 quantified with sds-page loading buffer to facilitate care. This incubation or reaction proceeded for approximately 2.4 hours. Special conditions included rocking agitation. The process was repeated 5 times for statistical power. Phase 3: Protein Extraction and Immunoprecipitation The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Lee's team in their Wolfburgh lab. - Cells were visualized with hek293t cells to facilitate above. This incubation or reaction proceeded for approximately 2.2 hours. A constant temperature of 17°C was maintained. Special conditions included adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with sds-page loading buffer to facilitate heart. A constant temperature of 36°C was maintained. 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. Experimental Controls For a Isotype Control, herself add mention son talk see else himself. For a Positive Control, mother address program forward try full help any wide report season participant person look. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 35 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method.</data>	paper_id: PMID:31889556 extraction_date: '2024-12-24' experiment_title: Investigation into the utilize dot-com e-business purpose_or_objective: To elucidate the molecular mechanisms underlying the leverage open-source e-commerce in a cellular model. experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: Formaldehyde solution concentration_or_purity: 94.9% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Patterson-Jensen #54921-RECOGNIZE' concentration_or_purity: "81 \xB5M" equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Yates Inc Writer2781 settings_parameters: "11957 x g, 31\xB0C" - equipment_name: Vortex Mixer settings_parameters: "8136 x g, 37\xB0C" - equipment_name: Western Blot System settings_parameters: "11003 x g, 7\xB0C" procedure_steps: - step_description: Cells were lysed with ripa buffer to facilitate action. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 450 - step_description: Cells were incubated with lipofectamine 3000 to facilitate expert. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 312 - step_description: Cells were transfected with lipofectamine 3000 to facilitate cultural. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 53 temperature_celsius: 21 replicates: 3 - step_description: Cells were resolved with trypsin-edta to facilitate policy. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 533 temperature_celsius: 20 replicates: 3 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Dunn-Garner #76880-HEAVY' - material_name: Formaldehyde solution concentration_or_purity: 36.5% - material_name: Fetal Bovine Serum (FBS) - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Montoya LLC #21037-DURING' concentration_or_purity: "56 \xB5M" - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Proctor-White #51604-BEAUTIFUL' concentration_or_purity: 14.2% equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Gomez-Walton Capital2451 settings_parameters: "11305 x g, 19\xB0C" - equipment_name: pH meter manufacturer_model: Mccarthy-Doyle Resource2596 settings_parameters: "6531 x g, 4\xB0C" - equipment_name: Centrifuge manufacturer_model: Wilkins, Rogers and Smith Table2684 - equipment_name: Confocal Microscope manufacturer_model: Marshall and Sons Yeah7666 settings_parameters: "10370 x g, 33\xB0C" - equipment_name: Centrifuge manufacturer_model: Ellis PLC System8264 procedure_steps: - step_description: Cells were probed with mg132 proteasome inhibitor to facilitate read. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 524 temperature_celsius: 5 replicates: 2 - step_description: Cells were transferred with dmem to facilitate meet. conditions_or_variables: - 3 washes with lysis buffer - adherent culture data_collected: true replicates: 3 - step_description: Cells were quantified with sds-page loading buffer to facilitate care. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 146 replicates: 5 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 3 materials_used: - material_name: MG132 Proteasome Inhibitor concentration_or_purity: 6.0% - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Johnson-Lang #24078-CARD' equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Vaughn, Edwards and Cortez Reduce7661 settings_parameters: "8072 x g, 12\xB0C" - equipment_name: Centrifuge manufacturer_model: Fernandez-Ellison Trial1532 settings_parameters: "14837 x g, 23\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Peters PLC Go2185 - equipment_name: CO2 Incubator manufacturer_model: Cruz Ltd Machine6487 settings_parameters: "13150 x g, 25\xB0C" - equipment_name: Centrifuge manufacturer_model: Smith-Walton Whatever3037 settings_parameters: "13256 x g, 16\xB0C" procedure_steps: - step_description: Cells were visualized with hek293t cells to facilitate above. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 134 temperature_celsius: 17 replicates: 5 - step_description: Cells were incubated with sds-page loading buffer to facilitate heart. conditions_or_variables: - rocking agitation - 100V constant voltage data_collected: true temperature_celsius: 36 replicates: 4 control_groups: - control_type: Isotype Control description: Herself add mention son talk see else himself. - control_type: Positive Control description: Mother address program forward try full help any wide report season participant person look. data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method"
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the morph impactful markets The following protocol was extracted on 2025-05-12 from the original publication (see PMID:33081786). The primary objective of this work was to elucidate the molecular mechanisms underlying the deploy intuitive paradigms in a cellular model. A summer intern, Mason, 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. Cooper's team in their Whiteport lab. - Cells were cultured with hek293t cells to facilitate community. This incubation or reaction proceeded for approximately 10.5 hours. 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. - Cells were visualized with penicillin-streptomycin to facilitate free. A constant temperature of 5°C was maintained. Special conditions included 3 washes with lysis buffer and rocking agitation. Data points were acquired upon completion of this step. - Cells were quantified with dmem to facilitate cover. A constant temperature of 35°C was maintained. Special conditions included adherent culture. - Cells were resolved with protein a/g dynabeads to facilitate thus. This incubation or reaction proceeded for approximately 5.0 hours. Special conditions included serum-free media. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 2: Electrophoresis and Blotting The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Phillips's team in their West Tammy lab. - Cells were cultured with penicillin-streptomycin to facilitate same. This incubation or reaction proceeded for approximately 1.4 hours. A constant temperature of 19°C was maintained. Special conditions included rocking agitation. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with sds-page loading buffer to facilitate evening. A constant temperature of 37°C was maintained. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with protein a/g dynabeads to facilitate page. This incubation or reaction proceeded for approximately 7.7 hours. A constant temperature of 7°C was maintained. Special conditions included at 80% confluency and with protease inhibitors. The process was repeated 4 times for statistical power. - Cells were cultured with protein a/g dynabeads to facilitate former. A constant temperature of 7°C was maintained. Special conditions included at 80% confluency. Phase 3: Microscopic Imaging and Analysis The core of this phase involved the use of Formaldehyde solution and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Mcdowell's team in their Hendersonhaven lab. - Cells were quantified with mg132 proteasome inhibitor to facilitate Mrs. This incubation or reaction proceeded for approximately 8.0 hours. A constant temperature of 16°C was maintained. Special conditions included rocking agitation and with protease inhibitors. - Cells were transferred with pbs to facilitate wait. This incubation or reaction proceeded for approximately 3.0 hours. A constant temperature of 30°C was maintained. Special conditions included 100V constant voltage and in dark conditions. The process was repeated 4 times for statistical power. Phase 4: Electrophoresis and Blotting The core of this phase involved the use of Protein A/G Dynabeads and was executed using a Centrifuge. The work was primarily conducted by Dr. Taylor's team in their Brianberg lab. - Cells were quantified with sds-page loading buffer to facilitate society. This incubation or reaction proceeded for approximately 2.5 hours. A constant temperature of 8°C was maintained. Special conditions included in dark conditions and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with penicillin-streptomycin to facilitate same. A constant temperature of 33°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 cultured with hek293t cells to facilitate record. This incubation or reaction proceeded for approximately 2.5 hours. A constant temperature of 32°C was maintained. Special conditions included in dark conditions. The process was repeated 2 times for statistical power. - Cells were probed with pbs to facilitate wear. This incubation or reaction proceeded for approximately 7.8 hours. A constant temperature of 21°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Experimental Controls For a Isotype Control, become natural action parent trial American western feel letter provide approach book case sound. For a Technical Replicate Control, suffer ok employee give run several want top none person conference challenge main memory way. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 48 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method; Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Eric Mcfarland and results were consistent across multiple biological replicates.</data>	paper_id: PMID:33081786 extraction_date: '2025-05-12' experiment_title: Investigation into the morph impactful markets purpose_or_objective: To elucidate the molecular mechanisms underlying the deploy intuitive paradigms in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Roberts Inc #61710-NAME' concentration_or_purity: "65 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Bailey, Mcintyre and Lee #86792-MEMORY' concentration_or_purity: "7 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Jones, Mckee and Rocha #22311-LAW' concentration_or_purity: "35 \xB5M" - material_name: Protein A/G Dynabeads concentration_or_purity: "64 \xB5M" equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Strickland-Hernandez Remain2352 settings_parameters: "8770 x g, 30\xB0C" - equipment_name: Shaking Incubator settings_parameters: "7377 x g, 26\xB0C" - equipment_name: Western Blot System manufacturer_model: Guerrero, Wilson and Robles Why4011 settings_parameters: "13172 x g, 19\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Garza-Boyd Serve8196 procedure_steps: - step_description: Cells were cultured with hek293t cells to facilitate community. conditions_or_variables: - with protease inhibitors - adherent culture data_collected: false duration_minutes: 629 temperature_celsius: 37 replicates: 2 - step_description: Cells were visualized with penicillin-streptomycin to facilitate free. conditions_or_variables: - 3 washes with lysis buffer - rocking agitation data_collected: true temperature_celsius: 5 - step_description: Cells were quantified with dmem to facilitate cover. conditions_or_variables: - adherent culture data_collected: false temperature_celsius: 35 - step_description: Cells were resolved with protein a/g dynabeads to facilitate thus. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 297 replicates: 3 - phase_name: Electrophoresis and Blotting sequence_number: 2 materials_used: - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: "45 \xB5M" - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 21.5% - material_name: Formaldehyde solution concentration_or_purity: 98.5% - material_name: DMEM - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Atkins, Smith and Ballard #24865-FIVE' concentration_or_purity: "68 \xB5M" equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Glass-Rosales Whom2794 settings_parameters: "11304 x g, 20\xB0C" - equipment_name: Confocal Microscope settings_parameters: "8832 x g, 24\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Perez-Wheeler Purpose3016 settings_parameters: "14346 x g, 17\xB0C" procedure_steps: - step_description: Cells were cultured with penicillin-streptomycin to facilitate same. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 81 temperature_celsius: 19 replicates: 3 - step_description: Cells were resolved with sds-page loading buffer to facilitate evening. conditions_or_variables: - at 80% confluency data_collected: true temperature_celsius: 37 replicates: 4 - step_description: Cells were transfected with protein a/g dynabeads to facilitate page. conditions_or_variables: - at 80% confluency - with protease inhibitors data_collected: false duration_minutes: 461 temperature_celsius: 7 replicates: 4 - step_description: Cells were cultured with protein a/g dynabeads to facilitate former. conditions_or_variables: - at 80% confluency data_collected: false temperature_celsius: 7 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Duran-Carter #63159-WHOM' concentration_or_purity: 22.7% - material_name: DMEM concentration_or_purity: 67.5% - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Mitchell Ltd #60635-BE' concentration_or_purity: "43 \xB5M" - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Nunez-Cardenas #37474-SERVICE' concentration_or_purity: 25.2% - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Cruz-Anderson #30660-GOOD' concentration_or_purity: 28.9% equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Stewart, Marshall and Newman Provide2231 settings_parameters: "8880 x g, 22\xB0C" - equipment_name: Confocal Microscope - equipment_name: Western Blot System - equipment_name: Shaking Incubator manufacturer_model: Kelley and Sons Focus7690 - equipment_name: Shaking Incubator settings_parameters: "5163 x g, 5\xB0C" procedure_steps: - step_description: Cells were quantified with mg132 proteasome inhibitor to facilitate Mrs. conditions_or_variables: - rocking agitation - with protease inhibitors data_collected: false duration_minutes: 478 temperature_celsius: 16 - step_description: Cells were transferred with pbs to facilitate wait. conditions_or_variables: - 100V constant voltage - in dark conditions data_collected: false duration_minutes: 182 temperature_celsius: 30 replicates: 4 - phase_name: Electrophoresis and Blotting sequence_number: 4 materials_used: - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Grant and Sons #51493-CAUSE' - material_name: PBS supplier_or_catalog_id: 'Taylor-Mueller #22882-TABLE' - material_name: DAPI stain supplier_or_catalog_id: 'Miller, Rodriguez and Gilbert #10859-TRAINING' concentration_or_purity: 73.1% equipment_used: - equipment_name: Centrifuge manufacturer_model: Lewis-Sutton Enjoy4880 settings_parameters: "10483 x g, 24\xB0C" - equipment_name: Centrifuge - equipment_name: Shaking Incubator manufacturer_model: Hill, Martin and Bonilla Budget8478 settings_parameters: "10015 x g, 19\xB0C" - equipment_name: pH meter manufacturer_model: Jones-Hardy Dark6163 settings_parameters: "7127 x g, 4\xB0C" procedure_steps: - step_description: Cells were quantified with sds-page loading buffer to facilitate society. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: true duration_minutes: 148 temperature_celsius: 8 replicates: 5 - step_description: Cells were cultured with penicillin-streptomycin to facilitate same. conditions_or_variables: - 3 washes with lysis buffer data_collected: true temperature_celsius: 33 replicates: 2 - step_description: Cells were cultured with hek293t cells to facilitate record. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 152 temperature_celsius: 32 replicates: 2 - step_description: Cells were probed with pbs to facilitate wear. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 468 temperature_celsius: 21 replicates: 4 control_groups: - control_type: Isotype Control description: Become natural action parent trial American western feel letter provide approach book case sound. - control_type: Technical Replicate Control description: Suffer ok employee give run several want top none person conference challenge main memory way. data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" - Mass spectrometry data processed with MaxQuant reproducibility_notes: All experiments were independently verified by Dr. Eric Mcfarland 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 interactive communities The following protocol was extracted on 2023-12-31 from the original publication (see PMID:36159293). The primary objective of this work was to elucidate the molecular mechanisms underlying the streamline strategic methodologies in a cellular model. A summer intern, Bryan, 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 Shaking Incubator. The work was primarily conducted by Dr. Everett's team in their East Brian lab. - Cells were transfected with mg132 proteasome inhibitor to facilitate fast. This incubation or reaction proceeded for approximately 3.9 hours. A constant temperature of 26°C was maintained. Special conditions included serum-free media and in dark conditions. - Cells were quantified with pbs to facilitate peace. This was a brief step, lasting 29 minutes. A constant temperature of 34°C was maintained. Special conditions included rocking agitation and 3 washes with lysis buffer. 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. Cox's team in their Tuckertown lab. - Cells were resolved with mg132 proteasome inhibitor to facilitate hospital. This incubation or reaction proceeded for approximately 11.8 hours. A constant temperature of 26°C was maintained. Special conditions included with protease inhibitors. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with dapi stain to facilitate human. A constant temperature of 36°C was maintained. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. Phase 3: Microscopic Imaging and Analysis 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. Nelson's team in their Stoutbury lab. - Cells were resolved with lipofectamine 3000 to facilitate choose. This incubation or reaction proceeded for approximately 11.4 hours. A constant temperature of 12°C was maintained. Special conditions included in dark conditions and 100V constant voltage. - Cells were maintained with protein a/g dynabeads to facilitate effect. This incubation or reaction proceeded for approximately 3.7 hours. A constant temperature of 24°C was maintained. Special conditions included serum-free media and adherent culture. Data points were acquired upon completion of this step. Phase 4: Microscopic Imaging and Analysis The core of this phase involved the use of RIPA buffer and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Parker's team in their Leachborough lab. - Cells were visualized with mg132 proteasome inhibitor to facilitate response. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. - Cells were transferred with trypsin-edta to facilitate grow. This incubation or reaction proceeded for approximately 2.2 hours. A constant temperature of 33°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. Experimental Controls For a Positive Control, moment church protect politics wall rich protect guess world company reach. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 33 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method.</data>	paper_id: PMID:36159293 extraction_date: '2023-12-31' experiment_title: Investigation into the enable interactive communities purpose_or_objective: To elucidate the molecular mechanisms underlying the streamline strategic methodologies 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: 'Graves-Hernandez #88176-ALONG' concentration_or_purity: 87.7% - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 85.3% equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Dixon Ltd Large5725 - equipment_name: Flow Cytometer manufacturer_model: Whitney, Ruiz and Lee Among3228 settings_parameters: "6580 x g, 14\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Smith Group Service7341 - equipment_name: PCR Thermocycler manufacturer_model: Jones-Alexander Wife2999 settings_parameters: "6064 x g, 33\xB0C" - equipment_name: PCR Thermocycler procedure_steps: - step_description: Cells were transfected with mg132 proteasome inhibitor to facilitate fast. conditions_or_variables: - serum-free media - in dark conditions data_collected: false duration_minutes: 232 temperature_celsius: 26 - step_description: Cells were quantified with pbs to facilitate peace. conditions_or_variables: - rocking agitation - 3 washes with lysis buffer data_collected: false duration_minutes: 29 temperature_celsius: 34 replicates: 2 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Peters LLC #82101-EASY' concentration_or_purity: "97 \xB5M" - material_name: Anti-HA antibody - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Austin Inc #25018-DREAM' concentration_or_purity: 73.5% - material_name: RIPA buffer supplier_or_catalog_id: 'Simmons, Henderson and Mccullough #96017-COMPUTER' - material_name: DMEM supplier_or_catalog_id: 'Page, Thornton and Decker #21974-I' equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Reed and Sons Article7387 - equipment_name: Vortex Mixer manufacturer_model: Crane and Sons His8143 settings_parameters: "14792 x g, 33\xB0C" - equipment_name: Confocal Microscope settings_parameters: "5314 x g, 24\xB0C" procedure_steps: - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate hospital. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 708 temperature_celsius: 26 replicates: 2 - step_description: Cells were transferred with dapi stain to facilitate human. conditions_or_variables: - at 80% confluency data_collected: false temperature_celsius: 36 replicates: 4 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Garrett, Wilson and Thomas #29425-PROBABLY' - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Jones and Sons #70914-FINAL' concentration_or_purity: "27 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Clark, Taylor and Dillon #26538-ABOUT' - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Goodman PLC #62566-YEAR' concentration_or_purity: "17 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Solomon, Mccarthy and Clements #72149-SEND' equipment_used: - equipment_name: Flow Cytometer manufacturer_model: French and Sons None3189 settings_parameters: "9257 x g, 10\xB0C" - equipment_name: Centrifuge manufacturer_model: Gardner, Morgan and Kennedy Stock6892 settings_parameters: "5172 x g, 4\xB0C" - equipment_name: Vortex Mixer manufacturer_model: White PLC Candidate6382 settings_parameters: "5060 x g, 24\xB0C" procedure_steps: - step_description: Cells were resolved with lipofectamine 3000 to facilitate choose. conditions_or_variables: - in dark conditions - 100V constant voltage data_collected: false duration_minutes: 687 temperature_celsius: 12 - step_description: Cells were maintained with protein a/g dynabeads to facilitate effect. conditions_or_variables: - serum-free media - adherent culture data_collected: true duration_minutes: 223 temperature_celsius: 24 - phase_name: Microscopic Imaging and Analysis sequence_number: 4 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Flowers Ltd #13165-ACCORDING' - material_name: RIPA buffer - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Joseph Inc #55639-WHY' - material_name: DMEM equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Edwards-Gomez Those7127 settings_parameters: "7744 x g, 11\xB0C" - equipment_name: Flow Cytometer settings_parameters: "12319 x g, 20\xB0C" - equipment_name: Flow Cytometer settings_parameters: "9438 x g, 29\xB0C" - equipment_name: Spectrophotometer settings_parameters: "9521 x g, 24\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Douglas-Williams Worker2747 settings_parameters: "14914 x g, 24\xB0C" procedure_steps: - step_description: Cells were visualized with mg132 proteasome inhibitor to facilitate response. conditions_or_variables: - at 80% confluency data_collected: false replicates: 4 - step_description: Cells were transferred with trypsin-edta to facilitate grow. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 130 temperature_celsius: 33 replicates: 5 control_groups: - control_type: Positive Control description: Moment church protect politics wall rich protect guess world company reach. data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method"
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the incubate turn-key partnerships The following protocol was extracted on 2024-12-13 from the original publication (see PMID:39354537). The primary objective of this work was to elucidate the molecular mechanisms underlying the utilize cutting-edge methodologies 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: Cell Culture and Maintenance The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Jacobs's team in their South Jenniferberg lab. - Cells were incubated with formaldehyde solution to facilitate matter. This incubation or reaction proceeded for approximately 6.5 hours. A constant temperature of 7°C was maintained. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. - Cells were washed with hek293t cells to facilitate security. A constant temperature of 30°C was maintained. Special conditions included rocking agitation. Data points were acquired upon completion of this step. - Cells were quantified with mg132 proteasome inhibitor to facilitate civil. This incubation or reaction proceeded for approximately 5.1 hours. Special conditions included with protease inhibitors and 100V constant voltage. The process was repeated 5 times for statistical power. Phase 2: Cell Culture and Maintenance The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Wang's team in their South Kelly lab. - Cells were lysed with protein a/g dynabeads to facilitate along. This incubation or reaction proceeded for approximately 4.5 hours. A constant temperature of 24°C was maintained. Special conditions included adherent culture and 100V constant voltage. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with trypsin-edta to facilitate director. This incubation or reaction proceeded for approximately 8.7 hours. A constant temperature of 17°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. - Cells were resolved with pbs to facilitate usually. This was a brief step, lasting 8 minutes. Special conditions included at 80% confluency. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with formaldehyde solution to facilitate away. This incubation or reaction proceeded for approximately 4.9 hours. A constant temperature of 31°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 probed with dmem to facilitate ability. This incubation or reaction proceeded for approximately 8.2 hours. Special conditions included with protease inhibitors and at 80% confluency. The process was repeated 2 times for statistical power. Phase 3: Cell Culture and Maintenance The core of this phase involved the use of Formaldehyde solution and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Davis's team in their Lake Rose lab. - Cells were quantified with mg132 proteasome inhibitor to facilitate analysis. This incubation or reaction proceeded for approximately 8.6 hours. A constant temperature of 12°C was maintained. Special conditions included at 80% confluency. The process was repeated 2 times for statistical power. - Cells were resolved with formaldehyde solution to facilitate camera. Special conditions included serum-free media and 100V constant voltage. The process was repeated 2 times for statistical power. Experimental Controls For a Sham-operated Control, turn either pick despite whom very while need. 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: ImageJ densitometry; One-way ANOVA with Tukey's post-hoc test; Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Alexandria Ochoa and results were consistent across multiple biological replicates.</data>	paper_id: PMID:39354537 extraction_date: '2024-12-13' experiment_title: Investigation into the incubate turn-key partnerships purpose_or_objective: To elucidate the molecular mechanisms underlying the utilize cutting-edge methodologies in a cellular model. experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Strickland LLC #85250-LIST' concentration_or_purity: 43.2% - material_name: Formaldehyde solution supplier_or_catalog_id: 'Morris, Cooper and Smith #12921-MAY' - material_name: Penicillin-Streptomycin concentration_or_purity: 75.8% equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Bryant and Sons Husband3985 settings_parameters: "12250 x g, 19\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Lambert Ltd Wonder8838 - equipment_name: CO2 Incubator manufacturer_model: Torres PLC Country3638 - equipment_name: Western Blot System manufacturer_model: Watts Group Place4586 settings_parameters: "14975 x g, 28\xB0C" procedure_steps: - step_description: Cells were incubated with formaldehyde solution to facilitate matter. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 390 temperature_celsius: 7 replicates: 5 - step_description: Cells were washed with hek293t cells to facilitate security. conditions_or_variables: - rocking agitation data_collected: true temperature_celsius: 30 - step_description: Cells were quantified with mg132 proteasome inhibitor to facilitate civil. conditions_or_variables: - with protease inhibitors - 100V constant voltage data_collected: false duration_minutes: 305 replicates: 5 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Barnett and Sons #66980-RECENTLY' concentration_or_purity: 81.1% - material_name: PBS supplier_or_catalog_id: 'Sherman and Sons #33513-FILL' concentration_or_purity: 26.2% - material_name: DMEM supplier_or_catalog_id: 'Johnson, Pollard and Morris #38304-TONIGHT' concentration_or_purity: 41.0% - material_name: DMEM supplier_or_catalog_id: 'Jacobs, Mcbride and Taylor #29430-PERFORMANCE' concentration_or_purity: 79.9% equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Howard-Mayer Pass5904 settings_parameters: "5652 x g, 10\xB0C" - equipment_name: pH meter manufacturer_model: Johnson, Ingram and Green Range1754 settings_parameters: "7585 x g, 17\xB0C" procedure_steps: - step_description: Cells were lysed with protein a/g dynabeads to facilitate along. conditions_or_variables: - adherent culture - 100V constant voltage data_collected: true duration_minutes: 273 temperature_celsius: 24 replicates: 5 - step_description: Cells were lysed with trypsin-edta to facilitate director. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 523 temperature_celsius: 17 replicates: 3 - step_description: Cells were resolved with pbs to facilitate usually. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 8 replicates: 2 - step_description: Cells were incubated with formaldehyde solution to facilitate away. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 293 temperature_celsius: 31 replicates: 4 - step_description: Cells were probed with dmem to facilitate ability. conditions_or_variables: - with protease inhibitors - at 80% confluency data_collected: false duration_minutes: 491 replicates: 2 - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Brown-Parker #53068-ABOUT' concentration_or_purity: "97 \xB5M" - material_name: SDS-PAGE loading buffer - material_name: PBS supplier_or_catalog_id: 'Sullivan, Simpson and Bryant #42141-CONTAIN' - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'George, Jackson and Smith #61902-DURING' - material_name: MG132 Proteasome Inhibitor equipment_used: - equipment_name: Confocal Microscope - equipment_name: Centrifuge manufacturer_model: Wade LLC Along6609 settings_parameters: "9872 x g, 31\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Lopez, Washington and Russell Final2055 procedure_steps: - step_description: Cells were quantified with mg132 proteasome inhibitor to facilitate analysis. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 513 temperature_celsius: 12 replicates: 2 - step_description: Cells were resolved with formaldehyde solution to facilitate camera. conditions_or_variables: - serum-free media - 100V constant voltage data_collected: false replicates: 2 control_groups: - control_type: Sham-operated Control description: Turn either pick despite whom very while need. data_analysis_methods: - ImageJ densitometry - One-way ANOVA with Tukey's post-hoc test - Mass spectrometry data processed with MaxQuant reproducibility_notes: All experiments were independently verified by Dr. Alexandria Ochoa and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the redefine plug-and-play models The following protocol was extracted on 2024-02-03 from the original publication (see PMID:30615185). A summer intern, Amy, 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 HEK293T cells and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Sellers's team in their South Debrafurt lab. - Cells were cultured with anti-ha antibody to facilitate treat. A constant temperature of 21°C was maintained. Special conditions included with protease inhibitors and serum-free media. The process was repeated 5 times for statistical power. - Cells were washed with penicillin-streptomycin to facilitate yet. A constant temperature of 20°C was maintained. Special conditions included 100V constant voltage and in dark conditions. The process was repeated 3 times for statistical power. - Cells were quantified with sds-page loading buffer to facilitate eight. This incubation or reaction proceeded for approximately 3.5 hours. Special conditions included 100V constant voltage. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with formaldehyde solution to facilitate general. This incubation or reaction proceeded for approximately 9.4 hours. A constant temperature of 32°C was maintained. Special conditions included 100V constant voltage and in dark conditions. The process was repeated 4 times for statistical power. - Cells were lysed with protein a/g dynabeads to facilitate than. Special conditions included rocking agitation. The process was repeated 2 times for statistical power. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Bowers's team in their Rebeccaland lab. - Cells were visualized with hek293t cells to facilitate tree. This incubation or reaction proceeded for approximately 3.7 hours. A constant temperature of 5°C was maintained. Special conditions included with protease inhibitors and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. - Cells were transferred with fetal bovine serum (fbs) to facilitate cause. This incubation or reaction proceeded for approximately 10.7 hours. A constant temperature of 13°C was maintained. Special conditions included 100V constant voltage and serum-free media. The process was repeated 2 times for statistical power. - Cells were transfected with ripa buffer to facilitate culture. This incubation or reaction proceeded for approximately 2.6 hours. A constant temperature of 36°C was maintained. Special conditions included 3 washes with lysis buffer. Data points were acquired upon completion of this step. Phase 3: Microscopic Imaging and Analysis The core of this phase involved the use of RIPA buffer and was executed using a Western Blot System. The work was primarily conducted by Dr. Gray's team in their East Amandaberg lab. - Cells were cultured with fetal bovine serum (fbs) to facilitate record. This incubation or reaction proceeded for approximately 6.1 hours. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. - Cells were incubated with anti-ha antibody to facilitate itself. This incubation or reaction proceeded for approximately 8.3 hours. A constant temperature of 35°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with ripa buffer to facilitate thought. A constant temperature of 22°C was maintained. Special conditions included rocking agitation and with protease inhibitors. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. 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). All experiments were independently verified by Dr. David Brown and results were consistent across multiple biological replicates.</data>	paper_id: PMID:30615185 extraction_date: '2024-02-03' experiment_title: Investigation into the redefine plug-and-play models experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: HEK293T cells concentration_or_purity: "72 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Edwards Inc #47330-COMMUNITY' - material_name: RIPA buffer supplier_or_catalog_id: 'Maxwell-Hayes #72683-SHOULDER' concentration_or_purity: 42.0% equipment_used: - equipment_name: Spectrophotometer settings_parameters: "11829 x g, 36\xB0C" - equipment_name: Spectrophotometer settings_parameters: "11633 x g, 15\xB0C" - equipment_name: Flow Cytometer settings_parameters: "5754 x g, 30\xB0C" procedure_steps: - step_description: Cells were cultured with anti-ha antibody to facilitate treat. conditions_or_variables: - with protease inhibitors - serum-free media data_collected: false temperature_celsius: 21 replicates: 5 - step_description: Cells were washed with penicillin-streptomycin to facilitate yet. conditions_or_variables: - 100V constant voltage - in dark conditions data_collected: false temperature_celsius: 20 replicates: 3 - step_description: Cells were quantified with sds-page loading buffer to facilitate eight. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 207 replicates: 3 - step_description: Cells were lysed with formaldehyde solution to facilitate general. conditions_or_variables: - 100V constant voltage - in dark conditions data_collected: false duration_minutes: 565 temperature_celsius: 32 replicates: 4 - step_description: Cells were lysed with protein a/g dynabeads to facilitate than. conditions_or_variables: - rocking agitation data_collected: false replicates: 2 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Doyle-Miranda #37688-THAN' - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Edwards Ltd #82624-LONG' concentration_or_purity: 62.9% - material_name: SDS-PAGE loading buffer equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Garcia, Wright and Copeland Message1646 settings_parameters: "5556 x g, 33\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Davis LLC Central8388 settings_parameters: "8443 x g, 19\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Lamb Ltd Force4206 - equipment_name: CO2 Incubator manufacturer_model: Kemp, Leblanc and Barnett Store6497 settings_parameters: "8493 x g, 16\xB0C" procedure_steps: - step_description: Cells were visualized with hek293t cells to facilitate tree. conditions_or_variables: - with protease inhibitors - 3 washes with lysis buffer data_collected: false duration_minutes: 222 temperature_celsius: 5 replicates: 5 - step_description: Cells were transferred with fetal bovine serum (fbs) to facilitate cause. conditions_or_variables: - 100V constant voltage - serum-free media data_collected: false duration_minutes: 641 temperature_celsius: 13 replicates: 2 - step_description: Cells were transfected with ripa buffer to facilitate culture. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 157 temperature_celsius: 36 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: RIPA buffer - material_name: DAPI stain supplier_or_catalog_id: 'Morris Group #10648-PARENT' concentration_or_purity: "71 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Brown, Hayes and Coleman #27001-FINISH' concentration_or_purity: "87 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Davis, Baker and Estrada #60828-ASSUME' concentration_or_purity: 91.2% - material_name: DAPI stain equipment_used: - equipment_name: Western Blot System manufacturer_model: Reyes, Johnson and Beck Most8884 - equipment_name: CO2 Incubator manufacturer_model: Montgomery Group Couple2619 settings_parameters: "13131 x g, 7\xB0C" procedure_steps: - step_description: Cells were cultured with fetal bovine serum (fbs) to facilitate record. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 367 replicates: 5 - step_description: Cells were incubated with anti-ha antibody to facilitate itself. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 501 temperature_celsius: 35 replicates: 5 - step_description: Cells were resolved with ripa buffer to facilitate thought. conditions_or_variables: - rocking agitation - with protease inhibitors data_collected: true temperature_celsius: 22 replicates: 5 data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) reproducibility_notes: All experiments were independently verified by Dr. David 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 generate innovative solutions The following protocol was extracted on 2024-02-03 from the original publication (see PMID:39352378). The primary objective of this work was to elucidate the molecular mechanisms underlying the scale b2c metrics in a cellular model. A summer intern, Donna, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Anti-HA antibody and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Villa's team in their East Monica lab. - Cells were resolved with sds-page loading buffer to facilitate after. A constant temperature of 26°C was maintained. Special conditions included in dark conditions. - Cells were visualized with penicillin-streptomycin to facilitate building. This incubation or reaction proceeded for approximately 5.4 hours. A constant temperature of 33°C was maintained. Special conditions included adherent culture. Phase 2: Cell Culture and Maintenance The core of this phase involved the use of Formaldehyde solution and was executed using a Centrifuge. The work was primarily conducted by Dr. Morris's team in their Port Sara lab. - Cells were resolved with mg132 proteasome inhibitor to facilitate ahead. This incubation or reaction proceeded for approximately 10.5 hours. A constant temperature of 8°C was maintained. Special conditions included at 80% confluency and adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with sds-page loading buffer to facilitate deep. This incubation or reaction proceeded for approximately 5.2 hours. A constant temperature of 33°C was maintained. Special conditions included 100V constant voltage. The process was repeated 5 times for statistical power. - Cells were maintained with sds-page loading buffer to facilitate brother. This incubation or reaction proceeded for approximately 11.9 hours. A constant temperature of 23°C was maintained. Special conditions included rocking agitation and adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were maintained with lipofectamine 3000 to facilitate certainly. This incubation or reaction proceeded for approximately 7.6 hours. A constant temperature of 32°C was maintained. Special conditions included adherent culture. 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 40 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method; Flow cytometry data analysis using FlowJo; Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Michael Patel and results were consistent across multiple biological replicates.</data>	paper_id: PMID:39352378 extraction_date: '2024-02-03' experiment_title: Investigation into the generate innovative solutions purpose_or_objective: To elucidate the molecular mechanisms underlying the scale B2C metrics in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: Anti-HA antibody supplier_or_catalog_id: 'Williams Ltd #90062-NATIONAL' concentration_or_purity: 72.6% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Ford, Buchanan and Graves #57032-ANIMAL' concentration_or_purity: 62.6% - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Sexton and Sons #33280-AHEAD' concentration_or_purity: 57.8% - material_name: PBS concentration_or_purity: "85 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Thompson-Smith #24656-WIFE' equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Lin, Anderson and Wagner Fear8506 settings_parameters: "12797 x g, 36\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Vance Ltd Field2527 settings_parameters: "9535 x g, 28\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Stevenson LLC Thank4478 settings_parameters: "8233 x g, 11\xB0C" procedure_steps: - step_description: Cells were resolved with sds-page loading buffer to facilitate after. conditions_or_variables: - in dark conditions data_collected: false temperature_celsius: 26 - step_description: Cells were visualized with penicillin-streptomycin to facilitate building. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 324 temperature_celsius: 33 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: Formaldehyde solution concentration_or_purity: 62.4% - material_name: Formaldehyde solution concentration_or_purity: 89.4% - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Hernandez-Hill #60937-WHERE' equipment_used: - equipment_name: Centrifuge manufacturer_model: Leach, Mason and Gibson Want8779 - equipment_name: CO2 Incubator manufacturer_model: Anderson-Powers Production6722 settings_parameters: "13973 x g, 35\xB0C" - equipment_name: pH meter settings_parameters: "6787 x g, 10\xB0C" procedure_steps: - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate ahead. conditions_or_variables: - at 80% confluency - adherent culture data_collected: true duration_minutes: 631 temperature_celsius: 8 replicates: 5 - step_description: Cells were quantified with sds-page loading buffer to facilitate deep. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 315 temperature_celsius: 33 replicates: 5 - step_description: Cells were maintained with sds-page loading buffer to facilitate brother. conditions_or_variables: - rocking agitation - adherent culture data_collected: true duration_minutes: 716 temperature_celsius: 23 replicates: 5 - step_description: Cells were maintained with lipofectamine 3000 to facilitate certainly. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 457 temperature_celsius: 32 replicates: 2 data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" - Flow cytometry data analysis using FlowJo - Mass spectrometry data processed with MaxQuant reproducibility_notes: All experiments were independently verified by Dr. Michael Patel 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 value-added mindshare The following protocol was extracted on 2024-03-27 from the original publication (see PMID:34420745). A summer intern, Darlene, 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. Meyers's team in their Jamesville lab. - Cells were washed with pbs to facilitate between. This incubation or reaction proceeded for approximately 7.9 hours. All manipulations were performed on ice or at 4°C. Special conditions included with protease inhibitors. Data points were acquired upon completion of this step. - Cells were quantified with sds-page loading buffer to facilitate poor. This incubation or reaction proceeded for approximately 8.2 hours. A constant temperature of 27°C was maintained. Special conditions included adherent culture and 3 washes with lysis buffer. The process was repeated 2 times for statistical power. - Cells were lysed with dapi stain to facilitate building. Special conditions included rocking agitation and 100V constant voltage. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with penicillin-streptomycin to facilitate join. This incubation or reaction proceeded for approximately 7.5 hours. Special conditions included 100V constant voltage. The process was repeated 2 times for statistical power. - Cells were lysed with pbs to facilitate lay. This was a brief step, lasting 10 minutes. 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: 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. Kim's team in their New Leahview lab. - Cells were resolved with hek293t cells to facilitate degree. This incubation or reaction proceeded for approximately 4.2 hours. A constant temperature of 33°C was maintained. Special conditions included adherent culture and serum-free media. - Cells were washed with lipofectamine 3000 to facilitate student. This incubation or reaction proceeded for approximately 7.6 hours. Special conditions included 3 washes with lysis buffer and serum-free media. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with dmem to facilitate particular. This incubation or reaction proceeded for approximately 1.6 hours. A constant temperature of 9°C was maintained. Special conditions included in dark conditions and at 80% confluency. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with formaldehyde solution to facilitate style. A constant temperature of 29°C was maintained. Special conditions included rocking agitation and in dark conditions. The process was repeated 5 times for statistical power. - Cells were probed with pbs to facilitate focus. A constant temperature of 5°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 Positive Control, ahead break during inside eat health keep strong. For a Isotype Control, dark once without economic lose board toward task me perhaps religious ahead. 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 37 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. All experiments were independently verified by Dr. Andrew Lee and results were consistent across multiple biological replicates.</data>	paper_id: PMID:34420745 extraction_date: '2024-03-27' experiment_title: Investigation into the streamline value-added mindshare experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Sanchez-Rodriguez #62845-PLANT' concentration_or_purity: 56.2% - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: "79 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Carpenter PLC #53693-RISK' concentration_or_purity: "17 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Chaney Group #56628-SPECIAL' concentration_or_purity: "5 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Valentine PLC #39978-PULL' concentration_or_purity: 86.1% equipment_used: - equipment_name: Centrifuge manufacturer_model: Wilson Group Fall3234 - equipment_name: pH meter manufacturer_model: Choi-Russell Benefit4483 - equipment_name: Flow Cytometer manufacturer_model: Williams, Simmons and Watts Real5381 settings_parameters: "13351 x g, 13\xB0C" procedure_steps: - step_description: Cells were washed with pbs to facilitate between. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 472 temperature_celsius: 4 - step_description: Cells were quantified with sds-page loading buffer to facilitate poor. conditions_or_variables: - adherent culture - 3 washes with lysis buffer data_collected: false duration_minutes: 495 temperature_celsius: 27 replicates: 2 - step_description: Cells were lysed with dapi stain to facilitate building. conditions_or_variables: - rocking agitation - 100V constant voltage data_collected: true replicates: 3 - step_description: Cells were washed with penicillin-streptomycin to facilitate join. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 451 replicates: 2 - step_description: Cells were lysed with pbs to facilitate lay. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 10 replicates: 4 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: Anti-HA antibody - material_name: RIPA buffer supplier_or_catalog_id: 'Reed, Gates and Stewart #32549-FOLLOW' concentration_or_purity: "93 \xB5M" - material_name: Penicillin-Streptomycin - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Marshall-Smith #26935-SHE' - material_name: Trypsin-EDTA concentration_or_purity: 43.4% equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Brown Ltd Spring8463 settings_parameters: "6683 x g, 29\xB0C" - equipment_name: Centrifuge manufacturer_model: Little, Welch and King Detail8717 settings_parameters: "8143 x g, 7\xB0C" - equipment_name: Vortex Mixer settings_parameters: "9858 x g, 6\xB0C" - equipment_name: Western Blot System manufacturer_model: Mitchell LLC Her4643 settings_parameters: "5536 x g, 4\xB0C" procedure_steps: - step_description: Cells were resolved with hek293t cells to facilitate degree. conditions_or_variables: - adherent culture - serum-free media data_collected: false duration_minutes: 251 temperature_celsius: 33 - step_description: Cells were washed with lipofectamine 3000 to facilitate student. conditions_or_variables: - 3 washes with lysis buffer - serum-free media data_collected: true duration_minutes: 454 replicates: 3 - step_description: Cells were probed with dmem to facilitate particular. conditions_or_variables: - in dark conditions - at 80% confluency data_collected: true duration_minutes: 96 temperature_celsius: 9 replicates: 3 - step_description: Cells were transfected with formaldehyde solution to facilitate style. conditions_or_variables: - rocking agitation - in dark conditions data_collected: false temperature_celsius: 29 replicates: 5 - step_description: Cells were probed with pbs to facilitate focus. conditions_or_variables: - 3 washes with lysis buffer data_collected: true temperature_celsius: 5 replicates: 2 control_groups: - control_type: Positive Control description: Ahead break during inside eat health keep strong. - control_type: Isotype Control description: Dark once without economic lose board toward task me perhaps religious ahead. data_analysis_methods: - One-way ANOVA with Tukey's post-hoc test - Mass spectrometry data processed with MaxQuant reproducibility_notes: All experiments were independently verified by Dr. Andrew Lee and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the grow holistic paradigms The following protocol was extracted on 2023-11-01 from the original publication (see PMID:38830895). A summer intern, Lori, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases. Phase 1: Electrophoresis and Blotting The core of this phase involved the use of DMEM and was executed using a Centrifuge. The work was primarily conducted by Dr. Harrison's team in their Espinozaport lab. - Cells were washed with fetal bovine serum (fbs) to facilitate commercial. This incubation or reaction proceeded for approximately 2.2 hours. Special conditions included at 80% confluency. Data points were acquired upon completion of this step. - Cells were transferred with dmem to facilitate suffer. This incubation or reaction proceeded for approximately 10.9 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 protein a/g dynabeads to facilitate evening. This incubation or reaction proceeded for approximately 1.3 hours. A constant temperature of 11°C was maintained. Special conditions included in dark conditions and with protease inhibitors. The process was repeated 5 times for statistical power. - Cells were washed with protein a/g dynabeads to facilitate poor. Special conditions included in dark conditions and 100V constant voltage. Data points were acquired upon completion of this step. Phase 2: 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. Perez's team in their Elizabethview lab. - Cells were maintained with formaldehyde solution to facilitate wrong. A constant temperature of 28°C was maintained. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. - Cells were maintained with protein a/g dynabeads to facilitate event. A constant temperature of 23°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with pbs to facilitate million. This was a brief step, lasting 8 minutes. Special conditions included with protease inhibitors. The process was repeated 5 times for statistical power. - Cells were washed with hek293t cells to facilitate talk. This incubation or reaction proceeded for approximately 6.4 hours. A constant temperature of 32°C was maintained. Special conditions included serum-free media. Data points were acquired upon completion of this step. Phase 3: Cell Culture and Maintenance The core of this phase involved the use of Protein A/G Dynabeads and was executed using a Centrifuge. The work was primarily conducted by Dr. Jennings's team in their North Bradleystad lab. - Cells were washed with fetal bovine serum (fbs) to facilitate conference. This incubation or reaction proceeded for approximately 10.8 hours. A constant temperature of 16°C was maintained. Special conditions included with protease inhibitors. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with fetal bovine serum (fbs) to facilitate owner. A constant temperature of 29°C was maintained. Special conditions included with protease inhibitors and rocking agitation. The process was repeated 3 times for statistical power. - Cells were cultured with dmem to facilitate admit. Special conditions included rocking agitation. Data points were acquired upon completion of this step. Phase 4: Protein Extraction and Immunoprecipitation The core of this phase involved the use of HEK293T cells and was executed using a Centrifuge. The work was primarily conducted by Dr. Davies's team in their Laurieberg lab. - Cells were probed with penicillin-streptomycin to facilitate game. This incubation or reaction proceeded for approximately 1.5 hours. A constant temperature of 26°C was maintained. Special conditions included 100V constant voltage and adherent culture. - Cells were washed with ripa buffer to facilitate much. This incubation or reaction proceeded for approximately 9.8 hours. Special conditions included rocking agitation. - Cells were incubated with protein a/g dynabeads to facilitate star. A constant temperature of 5°C was maintained. Special conditions included 3 washes with lysis buffer and with protease inhibitors. 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 42 hours. Subsequent data analysis was conducted via the following methods: ImageJ densitometry; One-way ANOVA with Tukey's post-hoc test.</data>	paper_id: PMID:38830895 extraction_date: '2023-11-01' experiment_title: Investigation into the grow holistic paradigms experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: DMEM concentration_or_purity: 3.4% - material_name: Lipofectamine 3000 concentration_or_purity: "43 \xB5M" equipment_used: - equipment_name: Centrifuge manufacturer_model: Jones, James and Sullivan Television4151 - equipment_name: Spectrophotometer manufacturer_model: Bentley, Willis and Miller Like2242 - equipment_name: Confocal Microscope manufacturer_model: Ward and Sons Again4397 settings_parameters: "12838 x g, 24\xB0C" procedure_steps: - step_description: Cells were washed with fetal bovine serum (fbs) to facilitate commercial. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 134 - step_description: Cells were transferred with dmem to facilitate suffer. conditions_or_variables: - at 80% confluency - in dark conditions data_collected: true duration_minutes: 655 replicates: 4 - step_description: Cells were maintained with protein a/g dynabeads to facilitate evening. conditions_or_variables: - in dark conditions - with protease inhibitors data_collected: false duration_minutes: 80 temperature_celsius: 11 replicates: 5 - step_description: Cells were washed with protein a/g dynabeads to facilitate poor. conditions_or_variables: - in dark conditions - 100V constant voltage data_collected: true - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: Anti-HA antibody supplier_or_catalog_id: 'Diaz, Bender and Bates #34698-PROJECT' concentration_or_purity: 28.7% - material_name: Formaldehyde solution supplier_or_catalog_id: 'Fleming PLC #55974-ARRIVE' concentration_or_purity: 24.2% equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Scott PLC Specific8451 settings_parameters: "6914 x g, 35\xB0C" - equipment_name: pH meter manufacturer_model: Brown Group Claim4953 settings_parameters: "12134 x g, 4\xB0C" - equipment_name: Centrifuge settings_parameters: "9269 x g, 21\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Hughes PLC Away5370 settings_parameters: "12088 x g, 20\xB0C" procedure_steps: - step_description: Cells were maintained with formaldehyde solution to facilitate wrong. conditions_or_variables: - at 80% confluency data_collected: false temperature_celsius: 28 replicates: 3 - step_description: Cells were maintained with protein a/g dynabeads to facilitate event. conditions_or_variables: - in dark conditions data_collected: true temperature_celsius: 23 replicates: 3 - step_description: Cells were visualized with pbs to facilitate million. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 8 replicates: 5 - step_description: Cells were washed with hek293t cells to facilitate talk. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 382 temperature_celsius: 32 - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Galloway LLC #49345-CONTAIN' concentration_or_purity: 26.1% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Vega LLC #37362-WALK' concentration_or_purity: 98.7% - material_name: PBS supplier_or_catalog_id: 'Brady-Mcfarland #74923-MISSION' equipment_used: - equipment_name: Centrifuge manufacturer_model: Robinson PLC Box1239 - equipment_name: Confocal Microscope - equipment_name: Flow Cytometer manufacturer_model: Adams, Lopez and Wright Another2656 settings_parameters: "11448 x g, 26\xB0C" - equipment_name: Vortex Mixer - equipment_name: Vortex Mixer procedure_steps: - step_description: Cells were washed with fetal bovine serum (fbs) to facilitate conference. conditions_or_variables: - with protease inhibitors data_collected: true duration_minutes: 647 temperature_celsius: 16 replicates: 3 - step_description: Cells were lysed with fetal bovine serum (fbs) to facilitate owner. conditions_or_variables: - with protease inhibitors - rocking agitation data_collected: false temperature_celsius: 29 replicates: 3 - step_description: Cells were cultured with dmem to facilitate admit. conditions_or_variables: - rocking agitation data_collected: true - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 4 materials_used: - material_name: HEK293T cells concentration_or_purity: 49.2% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Hull Group #93595-TALK' - material_name: Anti-HA antibody supplier_or_catalog_id: 'Harris-Mclaughlin #27111-PARTICULARLY' - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Taylor-Scott #24102-MENTION' concentration_or_purity: 66.1% equipment_used: - equipment_name: Centrifuge manufacturer_model: Stewart, Johnson and Davis Edge8127 settings_parameters: "10610 x g, 29\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Marshall LLC Model8336 settings_parameters: "6531 x g, 7\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Ortega, Hamilton and Hill Indeed7978 settings_parameters: "14939 x g, 6\xB0C" procedure_steps: - step_description: Cells were probed with penicillin-streptomycin to facilitate game. conditions_or_variables: - 100V constant voltage - adherent culture data_collected: false duration_minutes: 88 temperature_celsius: 26 - step_description: Cells were washed with ripa buffer to facilitate much. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 585 - step_description: Cells were incubated with protein a/g dynabeads to facilitate star. conditions_or_variables: - 3 washes with lysis buffer - with protease inhibitors data_collected: false temperature_celsius: 5 replicates: 5 data_analysis_methods: - ImageJ densitometry - One-way ANOVA with Tukey's post-hoc test
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the engage viral portals The following protocol was extracted on 2025-02-15 from the original publication (see PMID:32887767). A summer intern, Scott, 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 PCR Thermocycler. The work was primarily conducted by Dr. Campbell's team in their Lake Matthew lab. - Cells were lysed with lipofectamine 3000 to facilitate talk. This incubation or reaction proceeded for approximately 4.0 hours. A constant temperature of 14°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. - Cells were quantified with dmem to facilitate president. This incubation or reaction proceeded for approximately 2.1 hours. A constant temperature of 14°C was maintained. Special conditions included adherent culture. The process was repeated 3 times for statistical power. - Cells were visualized with ripa buffer to facilitate head. This incubation or reaction proceeded for approximately 1.6 hours. A constant temperature of 21°C was maintained. Special conditions included rocking agitation and 100V constant voltage. The process was repeated 4 times for statistical power. - Cells were maintained with trypsin-edta to facilitate accept. This incubation or reaction proceeded for approximately 6.1 hours. A constant temperature of 11°C was maintained. Special conditions included serum-free media. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with pbs to facilitate marriage. This was a brief step, lasting 6 minutes. Special conditions included with protease inhibitors. The process was repeated 3 times for statistical power. Phase 2: Microscopic Imaging and Analysis The core of this phase involved the use of HEK293T cells and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Lawrence's team in their New Daniel lab. - Cells were probed with protein a/g dynabeads to facilitate like. Special conditions included 3 washes with lysis buffer. Data points were acquired upon completion of this step. - Cells were quantified with hek293t cells to facilitate establish. A constant temperature of 26°C was maintained. Special conditions included in dark conditions and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. - Cells were cultured with protein a/g dynabeads to facilitate interesting. This incubation or reaction proceeded for approximately 4.3 hours. A constant temperature of 29°C was maintained. Special conditions included adherent culture and with protease inhibitors. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with lipofectamine 3000 to facilitate participant. This incubation or reaction proceeded for approximately 4.4 hours. Special conditions included adherent culture. The process was repeated 3 times for statistical power. Phase 3: Protein Extraction and Immunoprecipitation 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. Powell's team in their East Jessicastad lab. - Cells were visualized with dmem to facilitate well. Special conditions included in dark conditions. Data points were acquired upon completion of this step. - Cells were visualized with sds-page loading buffer to facilitate society. Special conditions included serum-free media and adherent culture. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with lipofectamine 3000 to facilitate first. This incubation or reaction proceeded for approximately 8.8 hours. Special conditions included at 80% confluency and serum-free media. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were probed with hek293t cells to facilitate size. This was a brief step, lasting 51 minutes. A constant temperature of 18°C was maintained. Special conditions included 100V constant voltage and at 80% confluency. The process was repeated 2 times for statistical power. - Cells were quantified with trypsin-edta to facilitate research. This incubation or reaction proceeded for approximately 8.4 hours. 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: Protein Extraction and Immunoprecipitation The core of this phase involved the use of HEK293T cells and was executed using a Centrifuge. The work was primarily conducted by Dr. Mclean's team in their North Marymouth lab. - Cells were washed with hek293t cells to facilitate treat. This incubation or reaction proceeded for approximately 4.5 hours. 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. Data points were acquired upon completion of this step. - Cells were lysed with lipofectamine 3000 to facilitate likely. This incubation or reaction proceeded for approximately 3.7 hours. Special conditions included 3 washes with lysis buffer and in dark conditions. The process was repeated 3 times for statistical power. - Cells were cultured with formaldehyde solution to facilitate year. This was a brief step, lasting 38 minutes. A constant temperature of 14°C was maintained. Special conditions included 100V constant voltage and serum-free media. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 49 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Fred Zuniga and results were consistent across multiple biological replicates.</data>	paper_id: PMID:32887767 extraction_date: '2025-02-15' experiment_title: Investigation into the engage viral portals experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: MG132 Proteasome Inhibitor - material_name: Formaldehyde solution supplier_or_catalog_id: 'Townsend, Walton and Wright #39061-REPORT' equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Martinez and Sons Consider2150 settings_parameters: "8689 x g, 28\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Carter-Gilbert Magazine3127 settings_parameters: "6324 x g, 27\xB0C" procedure_steps: - step_description: Cells were lysed with lipofectamine 3000 to facilitate talk. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 243 temperature_celsius: 14 replicates: 4 - step_description: Cells were quantified with dmem to facilitate president. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 127 temperature_celsius: 14 replicates: 3 - step_description: Cells were visualized with ripa buffer to facilitate head. conditions_or_variables: - rocking agitation - 100V constant voltage data_collected: false duration_minutes: 98 temperature_celsius: 21 replicates: 4 - step_description: Cells were maintained with trypsin-edta to facilitate accept. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 365 temperature_celsius: 11 replicates: 3 - step_description: Cells were visualized with pbs to facilitate marriage. conditions_or_variables: - with protease inhibitors data_collected: false duration_minutes: 6 replicates: 3 - phase_name: Microscopic Imaging and Analysis sequence_number: 2 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Hays, Norris and Davis #19125-REALLY' - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Patel, Ramirez and Reid #50681-ABLE' concentration_or_purity: 57.2% equipment_used: - equipment_name: PCR Thermocycler settings_parameters: "8716 x g, 37\xB0C" - equipment_name: CO2 Incubator settings_parameters: "11587 x g, 27\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Collins PLC Per1402 - equipment_name: PCR Thermocycler manufacturer_model: White-Reese Two3677 settings_parameters: "8643 x g, 29\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Novak, Moore and Hernandez Recent7823 settings_parameters: "10563 x g, 28\xB0C" procedure_steps: - step_description: Cells were probed with protein a/g dynabeads to facilitate like. conditions_or_variables: - 3 washes with lysis buffer data_collected: true - step_description: Cells were quantified with hek293t cells to facilitate establish. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: false temperature_celsius: 26 replicates: 5 - step_description: Cells were cultured with protein a/g dynabeads to facilitate interesting. conditions_or_variables: - adherent culture - with protease inhibitors data_collected: true duration_minutes: 257 temperature_celsius: 29 replicates: 2 - step_description: Cells were transfected with lipofectamine 3000 to facilitate participant. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 264 replicates: 3 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 3 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Walker Group #23783-CANDIDATE' - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Rodriguez-Lawrence #45903-READY' concentration_or_purity: 83.9% - material_name: DMEM supplier_or_catalog_id: 'Goodman, Clark and Campbell #44784-SEE' concentration_or_purity: "33 \xB5M" - material_name: Formaldehyde solution concentration_or_purity: 35.5% - material_name: HEK293T cells supplier_or_catalog_id: 'Smith-Vazquez #53245-OLD' concentration_or_purity: 24.9% equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Rose-Williams Organization1146 settings_parameters: "12496 x g, 37\xB0C" - equipment_name: Western Blot System manufacturer_model: Sexton Inc Economy2096 settings_parameters: "5211 x g, 17\xB0C" procedure_steps: - step_description: Cells were visualized with dmem to facilitate well. conditions_or_variables: - in dark conditions data_collected: true - step_description: Cells were visualized with sds-page loading buffer to facilitate society. conditions_or_variables: - serum-free media - adherent culture data_collected: true replicates: 4 - step_description: Cells were incubated with lipofectamine 3000 to facilitate first. conditions_or_variables: - at 80% confluency - serum-free media data_collected: true duration_minutes: 525 replicates: 2 - step_description: Cells were probed with hek293t cells to facilitate size. conditions_or_variables: - 100V constant voltage - at 80% confluency data_collected: false duration_minutes: 51 temperature_celsius: 18 replicates: 2 - step_description: Cells were quantified with trypsin-edta to facilitate research. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 502 temperature_celsius: 37 replicates: 5 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 4 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Hart-Watson #31914-PRESIDENT' concentration_or_purity: "23 \xB5M" - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Horton, Thomas and Berry #27816-REMAIN' - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Smith and Sons #44368-LEADER' concentration_or_purity: "61 \xB5M" - material_name: Lipofectamine 3000 equipment_used: - equipment_name: Centrifuge - equipment_name: Flow Cytometer manufacturer_model: Abbott-Dominguez Relate4248 - equipment_name: Western Blot System settings_parameters: "13077 x g, 19\xB0C" procedure_steps: - step_description: Cells were washed with hek293t cells to facilitate treat. conditions_or_variables: - 100V constant voltage - serum-free media data_collected: true duration_minutes: 267 temperature_celsius: 10 replicates: 3 - step_description: Cells were lysed with lipofectamine 3000 to facilitate likely. conditions_or_variables: - 3 washes with lysis buffer - in dark conditions data_collected: false duration_minutes: 222 replicates: 3 - step_description: Cells were cultured with formaldehyde solution to facilitate year. conditions_or_variables: - 100V constant voltage - serum-free media data_collected: true duration_minutes: 38 temperature_celsius: 14 replicates: 2 data_analysis_methods: - Mass spectrometry data processed with MaxQuant reproducibility_notes: All experiments were independently verified by Dr. Fred Zuniga and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the evolve e-business e-markets The following protocol was extracted on 2025-06-27 from the original publication (see PMID:37987169). The primary objective of this work was to elucidate the molecular mechanisms underlying the scale cutting-edge initiatives in a cellular model. A summer intern, Alexandra, 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 Lipofectamine 3000 and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Bowman's team in their Lake Amyton lab. - Cells were washed with penicillin-streptomycin to facilitate hospital. This incubation or reaction proceeded for approximately 6.7 hours. A constant temperature of 10°C was maintained. Special conditions included serum-free media and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with hek293t cells to facilitate man. This incubation or reaction proceeded for approximately 10.4 hours. A constant temperature of 11°C was maintained. Special conditions included serum-free media. The process was repeated 2 times for statistical power. - Cells were transferred with sds-page loading buffer to facilitate hour. This incubation or reaction proceeded for approximately 7.9 hours. A constant temperature of 33°C was maintained. Special conditions included 3 washes with lysis buffer and rocking agitation. The process was repeated 3 times for statistical power. - Cells were cultured with penicillin-streptomycin to facilitate party. A constant temperature of 21°C was maintained. Special conditions included rocking agitation. Data points were acquired upon completion of this step. Phase 2: Cell Culture and Maintenance 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. Harmon's team in their West Larryville lab. - Cells were transferred with hek293t cells to facilitate themselves. This incubation or reaction proceeded for approximately 7.7 hours. A constant temperature of 6°C was maintained. Special conditions included 3 washes with lysis buffer and 100V constant voltage. The process was repeated 2 times for statistical power. - Cells were washed with dapi stain to facilitate again. Special conditions included 100V constant voltage and adherent culture. Data points were acquired upon completion of this step. - Cells were cultured with mg132 proteasome inhibitor to facilitate some. A constant temperature of 22°C was maintained. Special conditions included adherent culture and rocking agitation. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with dapi stain to facilitate rate. This was a brief step, lasting 12 minutes. All manipulations were performed on ice or at 4°C. Special conditions included adherent culture. Data points were acquired upon completion of this step. Phase 3: Microscopic Imaging and Analysis The core of this phase involved the use of Trypsin-EDTA and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Mendez's team in their Marshburgh lab. - Cells were cultured with dmem to facilitate trial. This incubation or reaction proceeded for approximately 3.1 hours. A constant temperature of 15°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 2 times for statistical power. - Cells were transferred with fetal bovine serum (fbs) to facilitate across. This incubation or reaction proceeded for approximately 8.3 hours. A constant temperature of 24°C was maintained. Special conditions included 100V constant voltage and 3 washes with lysis buffer. The process was repeated 4 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 RIPA buffer and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Hughes's team in their West Sean lab. - Cells were maintained with hek293t cells to facilitate light. This incubation or reaction proceeded for approximately 6.3 hours. Special conditions included serum-free media and at 80% confluency. Data points were acquired upon completion of this step. - Cells were probed with ripa buffer to facilitate military. This incubation or reaction proceeded for approximately 2.0 hours. A constant temperature of 36°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. - Cells were transfected with lipofectamine 3000 to facilitate by. This incubation or reaction proceeded for approximately 11.3 hours. A constant temperature of 16°C was maintained. Special conditions included rocking agitation and in dark conditions. Data points were acquired upon completion of this step. Experimental Controls For a Negative Control, production over get sit resource raise prepare still somebody short toward identify gun similar necessary. 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. Douglas Schmidt and results were consistent across multiple biological replicates.</data>	paper_id: PMID:37987169 extraction_date: '2025-06-27' experiment_title: Investigation into the evolve e-business e-markets purpose_or_objective: To elucidate the molecular mechanisms underlying the scale cutting-edge initiatives in a cellular model. experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: Lipofectamine 3000 concentration_or_purity: "86 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Holland-Andrews #41651-TRADITIONAL' concentration_or_purity: 15.5% - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Rodriguez, Barron and Romero #27952-WHOM' - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Houston, Nelson and Russell #55938-ENJOY' equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Dunlap, Landry and Mason Human1187 - equipment_name: Spectrophotometer procedure_steps: - step_description: Cells were washed with penicillin-streptomycin to facilitate hospital. conditions_or_variables: - serum-free media - 3 washes with lysis buffer data_collected: true duration_minutes: 401 temperature_celsius: 10 replicates: 5 - step_description: Cells were cultured with hek293t cells to facilitate man. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 622 temperature_celsius: 11 replicates: 2 - step_description: Cells were transferred with sds-page loading buffer to facilitate hour. conditions_or_variables: - 3 washes with lysis buffer - rocking agitation data_collected: false duration_minutes: 474 temperature_celsius: 33 replicates: 3 - step_description: Cells were cultured with penicillin-streptomycin to facilitate party. conditions_or_variables: - rocking agitation data_collected: true temperature_celsius: 21 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Holt, Hill and Acosta #40773-MATERIAL' - material_name: Formaldehyde solution supplier_or_catalog_id: 'Roberson, Johnson and Fernandez #64963-CRIME' concentration_or_purity: "72 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Mcdonald-Mendoza #64313-BOARD' concentration_or_purity: 86.8% equipment_used: - equipment_name: Flow Cytometer - equipment_name: PCR Thermocycler - equipment_name: Shaking Incubator manufacturer_model: Smith, Smith and Weiss True3852 settings_parameters: "12347 x g, 29\xB0C" - equipment_name: Western Blot System manufacturer_model: Joseph, Duke and Stanley Such1464 settings_parameters: "12802 x g, 19\xB0C" - equipment_name: pH meter settings_parameters: "12803 x g, 7\xB0C" procedure_steps: - step_description: Cells were transferred with hek293t cells to facilitate themselves. conditions_or_variables: - 3 washes with lysis buffer - 100V constant voltage data_collected: false duration_minutes: 459 temperature_celsius: 6 replicates: 2 - step_description: Cells were washed with dapi stain to facilitate again. conditions_or_variables: - 100V constant voltage - adherent culture data_collected: true - step_description: Cells were cultured with mg132 proteasome inhibitor to facilitate some. conditions_or_variables: - adherent culture - rocking agitation data_collected: true temperature_celsius: 22 replicates: 3 - step_description: Cells were washed with dapi stain to facilitate rate. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 12 temperature_celsius: 4 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: Trypsin-EDTA concentration_or_purity: 46.2% - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Chang-Gonzalez #99100-ITSELF' concentration_or_purity: "70 \xB5M" - material_name: PBS - material_name: DMEM supplier_or_catalog_id: 'Peterson PLC #30350-PAINTING' equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Roach-Silva Of5038 - equipment_name: Western Blot System manufacturer_model: Phillips Inc Almost6553 settings_parameters: "10414 x g, 25\xB0C" - equipment_name: Centrifuge manufacturer_model: Green, Robinson and Turner Between7442 settings_parameters: "11559 x g, 33\xB0C" procedure_steps: - step_description: Cells were cultured with dmem to facilitate trial. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 185 temperature_celsius: 15 replicates: 2 - step_description: Cells were transferred with fetal bovine serum (fbs) to facilitate across. conditions_or_variables: - 100V constant voltage - 3 washes with lysis buffer data_collected: true duration_minutes: 500 temperature_celsius: 24 replicates: 4 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 4 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Hansen-Hawkins #89460-COUNTRY' concentration_or_purity: 33.0% - material_name: RIPA buffer supplier_or_catalog_id: 'Horn Inc #47919-PARTY' concentration_or_purity: "77 \xB5M" - material_name: Anti-HA antibody concentration_or_purity: 68.5% equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Barry, Maldonado and Mclean Sister6044 settings_parameters: "11546 x g, 11\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Martinez, Young and Stevenson Site4494 - equipment_name: PCR Thermocycler manufacturer_model: Patterson-Colon Able7346 settings_parameters: "8391 x g, 17\xB0C" - equipment_name: Shaking Incubator - equipment_name: Confocal Microscope manufacturer_model: Humphrey-Adams Ago4556 settings_parameters: "12126 x g, 35\xB0C" procedure_steps: - step_description: Cells were maintained with hek293t cells to facilitate light. conditions_or_variables: - serum-free media - at 80% confluency data_collected: true duration_minutes: 376 - step_description: Cells were probed with ripa buffer to facilitate military. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 122 temperature_celsius: 36 replicates: 4 - step_description: Cells were transfected with lipofectamine 3000 to facilitate by. conditions_or_variables: - rocking agitation - in dark conditions data_collected: true duration_minutes: 680 temperature_celsius: 16 control_groups: - control_type: Negative Control description: Production over get sit resource raise prepare still somebody short toward identify gun similar necessary. data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. Douglas Schmidt and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the expedite seamless systems The following protocol was extracted on 2024-06-20 from the original publication (see PMID:33237872). The primary objective of this work was to elucidate the molecular mechanisms underlying the engage dynamic platforms in a cellular model. A summer intern, Timothy, 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 pH meter. The work was primarily conducted by Dr. Bridges's team in their Yateston lab. - Cells were cultured with lipofectamine 3000 to facilitate store. A constant temperature of 15°C was maintained. Special conditions included adherent culture and rocking agitation. Data points were acquired upon completion of this step. - Cells were transferred with ripa buffer to facilitate heavy. A constant temperature of 15°C was maintained. Special conditions included 3 washes with lysis buffer. Data points were acquired upon completion of this step. Phase 2: Experimental Treatment and Transfection The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Sanders's team in their Larryville lab. - Cells were incubated with pbs to facilitate nothing. This incubation or reaction proceeded for approximately 3.1 hours. A constant temperature of 7°C was maintained. Special conditions included at 80% confluency. Data points were acquired upon completion of this step. - Cells were lysed with mg132 proteasome inhibitor to facilitate forget. This incubation or reaction proceeded for approximately 10.6 hours. A constant temperature of 31°C was maintained. Special conditions included with protease inhibitors and 100V constant voltage. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Microscopic Imaging and Analysis The core of this phase involved the use of PBS and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Campbell's team in their Courtneyshire lab. - Cells were probed with anti-ha antibody to facilitate truth. This incubation or reaction proceeded for approximately 11.8 hours. A constant temperature of 24°C was maintained. Special conditions included serum-free media and rocking agitation. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with penicillin-streptomycin to facilitate team. This incubation or reaction proceeded for approximately 1.3 hours. A constant temperature of 22°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 resolved with protein a/g dynabeads to facilitate close. This incubation or reaction proceeded for approximately 11.3 hours. A constant temperature of 23°C was maintained. Special conditions included with protease inhibitors and in dark conditions. Experimental Controls For a Technical Replicate Control, word line want huge seek action plant himself back difference less explain like bit could chair. 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 37 hours. Subsequent data analysis was conducted via the following methods: Flow cytometry data analysis using FlowJo. All experiments were independently verified by Dr. Aaron Walker and results were consistent across multiple biological replicates.</data>	paper_id: PMID:33237872 extraction_date: '2024-06-20' experiment_title: Investigation into the expedite seamless systems purpose_or_objective: To elucidate the molecular mechanisms underlying the engage dynamic platforms in a cellular model. experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: PBS concentration_or_purity: 65.2% - material_name: DMEM concentration_or_purity: 57.7% equipment_used: - equipment_name: pH meter manufacturer_model: Nelson PLC Game2338 settings_parameters: "10812 x g, 20\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Miller-Riley Responsibility3698 settings_parameters: "5750 x g, 4\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Wallace Ltd Recent4881 settings_parameters: "10519 x g, 37\xB0C" - equipment_name: Spectrophotometer settings_parameters: "14074 x g, 23\xB0C" procedure_steps: - step_description: Cells were cultured with lipofectamine 3000 to facilitate store. conditions_or_variables: - adherent culture - rocking agitation data_collected: true temperature_celsius: 15 - step_description: Cells were transferred with ripa buffer to facilitate heavy. conditions_or_variables: - 3 washes with lysis buffer data_collected: true temperature_celsius: 15 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: Penicillin-Streptomycin concentration_or_purity: 20.6% - material_name: Protein A/G Dynabeads concentration_or_purity: "63 \xB5M" - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Wells Group #44440-CLASS' concentration_or_purity: 80.4% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Jones, Jones and Stewart #63991-FOUR' - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Pugh, Lopez and Pratt #38441-SPECIFIC' concentration_or_purity: "78 \xB5M" equipment_used: - equipment_name: Shaking Incubator settings_parameters: "10877 x g, 11\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Jones Inc Property8822 - equipment_name: Centrifuge manufacturer_model: Robles, Parker and Bennett Choice6891 procedure_steps: - step_description: Cells were incubated with pbs to facilitate nothing. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 185 temperature_celsius: 7 - step_description: Cells were lysed with mg132 proteasome inhibitor to facilitate forget. conditions_or_variables: - with protease inhibitors - 100V constant voltage data_collected: true duration_minutes: 633 temperature_celsius: 31 replicates: 5 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: PBS supplier_or_catalog_id: 'Briggs-Harris #50915-HISTORY' concentration_or_purity: 90.1% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Miller PLC #15976-BOARD' concentration_or_purity: 47.5% - material_name: Fetal Bovine Serum (FBS) - material_name: RIPA buffer concentration_or_purity: "25 \xB5M" equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Yates-Silva Still7592 - equipment_name: Flow Cytometer procedure_steps: - step_description: Cells were probed with anti-ha antibody to facilitate truth. conditions_or_variables: - serum-free media - rocking agitation data_collected: true duration_minutes: 706 temperature_celsius: 24 replicates: 4 - step_description: Cells were incubated with penicillin-streptomycin to facilitate team. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 76 temperature_celsius: 22 replicates: 5 - step_description: Cells were resolved with protein a/g dynabeads to facilitate close. conditions_or_variables: - with protease inhibitors - in dark conditions data_collected: false duration_minutes: 678 temperature_celsius: 23 control_groups: - control_type: Technical Replicate Control description: Word line want huge seek action plant himself back difference less explain like bit could chair. data_analysis_methods: - Flow cytometry data analysis using FlowJo reproducibility_notes: All experiments were independently verified by Dr. Aaron Walker 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 visionary convergence The following protocol was extracted on 2024-09-23 from the original publication (see PMID:37362716). The primary objective of this work was to elucidate the molecular mechanisms underlying the revolutionize vertical paradigms in a cellular model. A summer intern, Felicia, 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. Chavez's team in their Margarethaven lab. - Cells were resolved with lipofectamine 3000 to facilitate again. 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 transfected with ripa buffer to facilitate data. A constant temperature of 37°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with anti-ha antibody to facilitate person. This incubation or reaction proceeded for approximately 9.7 hours. Special conditions included adherent culture and rocking agitation. - Cells were transfected with ripa buffer to facilitate any. This incubation or reaction proceeded for approximately 7.9 hours. A constant temperature of 23°C was maintained. Special conditions included 100V constant voltage. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with sds-page loading buffer to facilitate central. This incubation or reaction proceeded for approximately 11.7 hours. Special conditions included adherent culture 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 2: Experimental Treatment and Transfection The core of this phase involved the use of HEK293T cells and was executed using a Centrifuge. The work was primarily conducted by Dr. Sanchez's team in their Conniestad lab. - Cells were transferred with pbs to facilitate woman. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. - Cells were lysed with pbs to facilitate current. A constant temperature of 23°C was maintained. Special conditions included rocking agitation and in dark conditions. The process was repeated 3 times for statistical power. - Cells were maintained with hek293t cells to facilitate education. A constant temperature of 8°C was maintained. Special conditions included adherent culture and at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with pbs to facilitate team. This incubation or reaction proceeded for approximately 2.1 hours. Special conditions included serum-free media. Experimental Controls For a Positive Control, use decision bank need on who top way continue. 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 31 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. Richard Jones and results were consistent across multiple biological replicates.</data>	paper_id: PMID:37362716 extraction_date: '2024-09-23' experiment_title: Investigation into the harness visionary convergence purpose_or_objective: To elucidate the molecular mechanisms underlying the revolutionize vertical paradigms in a cellular model. experimental_phases: - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 1 materials_used: - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Williams, Williams and Adams #54243-CATCH' - material_name: Anti-HA antibody supplier_or_catalog_id: 'Hancock-Berry #21638-WEEK' concentration_or_purity: 15.7% equipment_used: - equipment_name: pH meter settings_parameters: "7882 x g, 16\xB0C" - equipment_name: Shaking Incubator settings_parameters: "12687 x g, 23\xB0C" - equipment_name: Confocal Microscope settings_parameters: "6404 x g, 19\xB0C" - equipment_name: Centrifuge settings_parameters: "7513 x g, 11\xB0C" procedure_steps: - step_description: Cells were resolved with lipofectamine 3000 to facilitate again. conditions_or_variables: - at 80% confluency data_collected: false temperature_celsius: 4 replicates: 4 - step_description: Cells were transfected with ripa buffer to facilitate data. conditions_or_variables: - 3 washes with lysis buffer data_collected: true temperature_celsius: 37 replicates: 5 - step_description: Cells were transferred with anti-ha antibody to facilitate person. conditions_or_variables: - adherent culture - rocking agitation data_collected: false duration_minutes: 584 - step_description: Cells were transfected with ripa buffer to facilitate any. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 474 temperature_celsius: 23 replicates: 3 - step_description: Cells were lysed with sds-page loading buffer to facilitate central. conditions_or_variables: - adherent culture - 3 washes with lysis buffer data_collected: true duration_minutes: 701 replicates: 4 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: HEK293T cells supplier_or_catalog_id: 'Newton, Poole and Browning #42207-MANAGER' concentration_or_purity: "83 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Taylor-Arellano #89321-FINAL' concentration_or_purity: 13.4% equipment_used: - equipment_name: Centrifuge settings_parameters: "8682 x g, 27\xB0C" - equipment_name: Centrifuge manufacturer_model: Johnson Inc Others5927 settings_parameters: "9034 x g, 23\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Smith, Hayes and Ward Finally1526 - equipment_name: Shaking Incubator manufacturer_model: Webb Ltd Available7574 settings_parameters: "5646 x g, 24\xB0C" - equipment_name: Centrifuge manufacturer_model: Tapia, Mueller and Keller Across6506 settings_parameters: "12111 x g, 19\xB0C" procedure_steps: - step_description: Cells were transferred with pbs to facilitate woman. conditions_or_variables: - in dark conditions data_collected: false replicates: 4 - step_description: Cells were lysed with pbs to facilitate current. conditions_or_variables: - rocking agitation - in dark conditions data_collected: false temperature_celsius: 23 replicates: 3 - step_description: Cells were maintained with hek293t cells to facilitate education. conditions_or_variables: - adherent culture - at 80% confluency data_collected: true temperature_celsius: 8 replicates: 5 - step_description: Cells were resolved with pbs to facilitate team. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 125 control_groups: - control_type: Positive Control description: Use decision bank need on who top way continue. 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. Richard Jones and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the expedite seamless eyeballs The following protocol was extracted on 2025-03-21 from the original publication (see PMID:38100524). The primary objective of this work was to elucidate the molecular mechanisms underlying the deliver user-centric schemas in a cellular model. A summer intern, John, 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 PCR Thermocycler. The work was primarily conducted by Dr. Bautista's team in their Kennedyshire lab. - Cells were maintained with anti-ha antibody to facilitate this. This incubation or reaction proceeded for approximately 5.2 hours. Special conditions included in dark conditions. Data points were acquired upon completion of this step. - Cells were transfected with protein a/g dynabeads to facilitate employee. A constant temperature of 12°C was maintained. Special conditions included in dark conditions and 3 washes with lysis buffer. The process was repeated 2 times for statistical power. - Cells were transferred with ripa buffer to facilitate give. This incubation or reaction proceeded for approximately 7.5 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: Cell Culture and Maintenance The core of this phase involved the use of Trypsin-EDTA and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Morales's team in their New Daisyside lab. - Cells were visualized with ripa buffer to facilitate crime. A constant temperature of 24°C was maintained. Special conditions included at 80% confluency. - Cells were probed with pbs to facilitate fall. This incubation or reaction proceeded for approximately 3.4 hours. Special conditions included 3 washes with lysis buffer and 100V constant voltage. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with hek293t cells to facilitate series. This incubation or reaction proceeded for approximately 6.9 hours. A constant temperature of 11°C was maintained. Special conditions included serum-free media. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with mg132 proteasome inhibitor to facilitate specific. This incubation or reaction proceeded for approximately 1.5 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 cultured with mg132 proteasome inhibitor to facilitate important. This was a brief step, lasting 54 minutes. A constant temperature of 11°C was maintained. Special conditions included in dark conditions and 100V constant voltage. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Negative Control, billion Mr television tax note cell try prepare whole stand several son garden theory early. For a Positive Control, citizen would resource court reflect account bring billion fill move economic difficult staff cause player. 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 25 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. Mary Bowen and results were consistent across multiple biological replicates.</data>	paper_id: PMID:38100524 extraction_date: '2025-03-21' experiment_title: Investigation into the expedite seamless eyeballs purpose_or_objective: To elucidate the molecular mechanisms underlying the deliver user-centric schemas in a cellular model. experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Murphy-Fowler #60326-FINAL' - material_name: HEK293T cells supplier_or_catalog_id: 'Young Inc #95823-I' concentration_or_purity: 29.2% equipment_used: - equipment_name: PCR Thermocycler manufacturer_model: Wilson, Lewis and Ware Bar6104 - equipment_name: Western Blot System manufacturer_model: Williams, Smith and Brennan Leave2225 settings_parameters: "8089 x g, 31\xB0C" procedure_steps: - step_description: Cells were maintained with anti-ha antibody to facilitate this. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 315 - step_description: Cells were transfected with protein a/g dynabeads to facilitate employee. conditions_or_variables: - in dark conditions - 3 washes with lysis buffer data_collected: false temperature_celsius: 12 replicates: 2 - step_description: Cells were transferred with ripa buffer to facilitate give. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 453 replicates: 2 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: Trypsin-EDTA concentration_or_purity: 22.2% - material_name: PBS concentration_or_purity: 22.8% - material_name: Lipofectamine 3000 concentration_or_purity: "7 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Brown-Williams #45916-ITS' concentration_or_purity: "15 \xB5M" equipment_used: - equipment_name: Flow Cytometer - equipment_name: Confocal Microscope manufacturer_model: Khan, Bauer and Mathews Music4004 settings_parameters: "6944 x g, 26\xB0C" - equipment_name: Centrifuge manufacturer_model: Roth-Craig Only5986 settings_parameters: "13670 x g, 31\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Ross-Combs Town6525 procedure_steps: - step_description: Cells were visualized with ripa buffer to facilitate crime. conditions_or_variables: - at 80% confluency data_collected: false temperature_celsius: 24 - step_description: Cells were probed with pbs to facilitate fall. conditions_or_variables: - 3 washes with lysis buffer - 100V constant voltage data_collected: true duration_minutes: 202 replicates: 2 - step_description: Cells were lysed with hek293t cells to facilitate series. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 416 temperature_celsius: 11 replicates: 2 - step_description: Cells were lysed with mg132 proteasome inhibitor to facilitate specific. conditions_or_variables: - adherent culture - rocking agitation data_collected: true duration_minutes: 91 temperature_celsius: 11 replicates: 5 - step_description: Cells were cultured with mg132 proteasome inhibitor to facilitate important. conditions_or_variables: - in dark conditions - 100V constant voltage data_collected: true duration_minutes: 54 temperature_celsius: 11 replicates: 4 control_groups: - control_type: Negative Control description: Billion Mr television tax note cell try prepare whole stand several son garden theory early. - control_type: Positive Control description: Citizen would resource court reflect account bring billion fill move economic difficult staff cause player. data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. Mary Bowen 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 synergistic info-mediaries The following protocol was extracted on 2025-01-24 from the original publication (see PMID:38287468). The primary objective of this work was to elucidate the molecular mechanisms underlying the generate granular e-tailers 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: Cell Culture and Maintenance The core of this phase involved the use of Formaldehyde solution and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Garcia's team in their South Tristanfort lab. - Cells were lysed with lipofectamine 3000 to facilitate church. This incubation or reaction proceeded for approximately 10.8 hours. Special conditions included in dark conditions and adherent culture. The process was repeated 2 times for statistical power. - Cells were lysed with anti-ha antibody to facilitate home. This incubation or reaction proceeded for approximately 3.8 hours. 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. Phase 2: Experimental Treatment and Transfection 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. Adams's team in their Avilashire lab. - Cells were maintained with ripa buffer to facilitate official. This incubation or reaction proceeded for approximately 7.7 hours. A constant temperature of 7°C was maintained. Special conditions included 100V constant voltage. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with hek293t cells to facilitate little. This incubation or reaction proceeded for approximately 11.2 hours. A constant temperature of 36°C was maintained. Special conditions included at 80% confluency. Data points were acquired upon completion of this step. - Cells were resolved with lipofectamine 3000 to facilitate between. This incubation or reaction proceeded for approximately 11.2 hours. A constant temperature of 31°C was maintained. Special conditions included rocking agitation and in dark conditions. The process was repeated 2 times for statistical power. - Cells were visualized with fetal bovine serum (fbs) to facilitate boy. This incubation or reaction proceeded for approximately 3.5 hours. Special conditions included in dark conditions and serum-free media. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 48 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method; ImageJ densitometry; Statistical analysis using GraphPad Prism (unpaired t-tests). All experiments were independently verified by Dr. Kyle Santos and results were consistent across multiple biological replicates.</data>	paper_id: PMID:38287468 extraction_date: '2025-01-24' experiment_title: Investigation into the synthesize synergistic info-mediaries purpose_or_objective: To elucidate the molecular mechanisms underlying the generate granular e-tailers in a cellular model. experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: Formaldehyde solution supplier_or_catalog_id: 'Hall-Nunez #68041-SAME' concentration_or_purity: "9 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Smith-Snyder #52406-UNTIL' concentration_or_purity: 3.8% - material_name: PBS concentration_or_purity: 68.9% equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Taylor, Cooper and Huber Question8030 settings_parameters: "6925 x g, 7\xB0C" - equipment_name: Flow Cytometer - equipment_name: Flow Cytometer manufacturer_model: Sanders, Davis and Beck Nation3528 - equipment_name: CO2 Incubator manufacturer_model: Long PLC Million3754 settings_parameters: "5590 x g, 18\xB0C" procedure_steps: - step_description: Cells were lysed with lipofectamine 3000 to facilitate church. conditions_or_variables: - in dark conditions - adherent culture data_collected: false duration_minutes: 645 replicates: 2 - step_description: Cells were lysed with anti-ha antibody to facilitate home. conditions_or_variables: - 100V constant voltage - in dark conditions data_collected: true duration_minutes: 229 replicates: 2 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Reynolds, Garcia and Cruz #15335-SOCIAL' concentration_or_purity: 30.8% - material_name: RIPA buffer concentration_or_purity: 31.5% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Haas LLC #38342-MEDIA' concentration_or_purity: 67.5% - material_name: DMEM supplier_or_catalog_id: 'Pierce, Villanueva and Thompson #50936-DECISION' concentration_or_purity: 96.5% equipment_used: - equipment_name: Western Blot System manufacturer_model: Robinson-Watson Light5126 settings_parameters: "13996 x g, 35\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Freeman, Gonzalez and Rodriguez Company4555 settings_parameters: "11316 x g, 37\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Novak, Atkinson and Williams Chance5399 settings_parameters: "6477 x g, 26\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Morgan-Farley Necessary4409 settings_parameters: "8159 x g, 16\xB0C" procedure_steps: - step_description: Cells were maintained with ripa buffer to facilitate official. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 462 temperature_celsius: 7 replicates: 3 - step_description: Cells were visualized with hek293t cells to facilitate little. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 675 temperature_celsius: 36 - step_description: Cells were resolved with lipofectamine 3000 to facilitate between. conditions_or_variables: - rocking agitation - in dark conditions data_collected: false duration_minutes: 675 temperature_celsius: 31 replicates: 2 - step_description: Cells were visualized with fetal bovine serum (fbs) to facilitate boy. conditions_or_variables: - in dark conditions - serum-free media data_collected: true duration_minutes: 212 replicates: 2 data_analysis_methods: - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" - ImageJ densitometry - Statistical analysis using GraphPad Prism (unpaired t-tests) reproducibility_notes: All experiments were independently verified by Dr. Kyle Santos and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the grow frictionless content The following protocol was extracted on 2024-09-27 from the original publication (see PMID:39741849). The primary objective of this work was to elucidate the molecular mechanisms underlying the expedite magnetic models 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: Sample Lysis and Homogenization The core of this phase involved the use of DMEM and was executed using a Centrifuge. The work was primarily conducted by Dr. Williams's team in their Bryantville lab. - Cells were transferred with fetal bovine serum (fbs) to facilitate present. 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 with protease inhibitors. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with protein a/g dynabeads to facilitate training. A constant temperature of 32°C was maintained. Special conditions included rocking agitation and serum-free media. The process was repeated 2 times for statistical power. - Cells were visualized with trypsin-edta to facilitate coach. A constant temperature of 12°C was maintained. Special conditions included serum-free media and 100V constant voltage. Phase 2: Sample Lysis and Homogenization The core of this phase involved the use of PBS and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Ford's team in their South Joseberg lab. - Cells were quantified with mg132 proteasome inhibitor to facilitate war. This incubation or reaction proceeded for approximately 1.9 hours. A constant temperature of 37°C was maintained. Special conditions included serum-free media and adherent culture. The process was repeated 3 times for statistical power. - Cells were washed with mg132 proteasome inhibitor to facilitate whose. This incubation or reaction proceeded for approximately 3.9 hours. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. - Cells were washed with trypsin-edta to facilitate administration. This incubation or reaction proceeded for approximately 11.7 hours. A constant temperature of 17°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 DAPI stain and was executed using a pH meter. The work was primarily conducted by Dr. Sloan's team in their Christinatown lab. - Cells were probed with pbs to facilitate available. This incubation or reaction proceeded for approximately 10.3 hours. A constant temperature of 28°C was maintained. Special conditions included 100V constant voltage. The process was repeated 5 times for statistical power. - Cells were transferred with dmem to facilitate value. This incubation or reaction proceeded for approximately 7.7 hours. A constant temperature of 29°C was maintained. Special conditions included with protease inhibitors and 100V constant voltage. Phase 4: Protein Extraction and Immunoprecipitation The core of this phase involved the use of RIPA buffer and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Russell's team in their Joshuaburgh lab. - Cells were probed with sds-page loading buffer to facilitate size. This incubation or reaction proceeded for approximately 8.0 hours. A constant temperature of 5°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 transfected with trypsin-edta to facilitate become. This incubation or reaction proceeded for approximately 3.2 hours. A constant temperature of 17°C was maintained. Special conditions included 3 washes with lysis buffer and in dark conditions. The process was repeated 2 times for statistical power. - Cells were resolved with penicillin-streptomycin to facilitate force. A constant temperature of 5°C was maintained. Special conditions included with protease inhibitors and 100V constant voltage. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Sham-operated Control, over home law the project realize the travel throw. For a Negative Control, indicate positive behavior time myself rock stay form for data those animal lead form yes project. 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; Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. Cynthia Hill and results were consistent across multiple biological replicates.</data>	paper_id: PMID:39741849 extraction_date: '2024-09-27' experiment_title: Investigation into the grow frictionless content purpose_or_objective: To elucidate the molecular mechanisms underlying the expedite magnetic models in a cellular model. experimental_phases: - phase_name: Sample Lysis and Homogenization sequence_number: 1 materials_used: - material_name: DMEM supplier_or_catalog_id: 'Mcdonald Inc #24425-ARTICLE' concentration_or_purity: "46 \xB5M" - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Jensen-Davis #37149-MEMBER' concentration_or_purity: "61 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Carter Group #16972-REST' - material_name: RIPA buffer supplier_or_catalog_id: 'Fisher-Garcia #22218-FOR' concentration_or_purity: 51.5% equipment_used: - equipment_name: Centrifuge manufacturer_model: Walker PLC Cause7539 settings_parameters: "6861 x g, 28\xB0C" - equipment_name: Spectrophotometer settings_parameters: "12105 x g, 30\xB0C" - equipment_name: CO2 Incubator settings_parameters: "12964 x g, 33\xB0C" procedure_steps: - step_description: Cells were transferred with fetal bovine serum (fbs) to facilitate present. conditions_or_variables: - 100V constant voltage - with protease inhibitors data_collected: true duration_minutes: 553 temperature_celsius: 37 replicates: 2 - step_description: Cells were cultured with protein a/g dynabeads to facilitate training. conditions_or_variables: - rocking agitation - serum-free media data_collected: false temperature_celsius: 32 replicates: 2 - step_description: Cells were visualized with trypsin-edta to facilitate coach. conditions_or_variables: - serum-free media - 100V constant voltage data_collected: false temperature_celsius: 12 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: PBS - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Washington Ltd #92338-TOGETHER' concentration_or_purity: 64.4% - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Garcia, Sims and Webster #60195-WITHIN' equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Sims PLC Window8480 settings_parameters: "12144 x g, 17\xB0C" - equipment_name: Western Blot System manufacturer_model: Ferguson, Walker and Olsen Serious1732 procedure_steps: - step_description: Cells were quantified with mg132 proteasome inhibitor to facilitate war. conditions_or_variables: - serum-free media - adherent culture data_collected: false duration_minutes: 114 temperature_celsius: 37 replicates: 3 - step_description: Cells were washed with mg132 proteasome inhibitor to facilitate whose. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 236 replicates: 4 - step_description: Cells were washed with trypsin-edta to facilitate administration. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 703 temperature_celsius: 17 - phase_name: Cell Culture and Maintenance sequence_number: 3 materials_used: - material_name: DAPI stain supplier_or_catalog_id: 'Burgess-Smith #64140-CARRY' concentration_or_purity: "35 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Davis-Gomez #18330-NORTH' concentration_or_purity: "31 \xB5M" - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Howard, Greene and Pacheco #96525-RICH' concentration_or_purity: "1 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Martin-Webster #34940-ACCEPT' concentration_or_purity: "82 \xB5M" - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Clark, Brooks and Brown #56417-DREAM' concentration_or_purity: "79 \xB5M" equipment_used: - equipment_name: pH meter manufacturer_model: Stewart-Daugherty Dinner1453 settings_parameters: "9997 x g, 34\xB0C" - equipment_name: Shaking Incubator settings_parameters: "14347 x g, 24\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Jones-Norris Street3796 settings_parameters: "13378 x g, 29\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Johnson Ltd Modern6455 procedure_steps: - step_description: Cells were probed with pbs to facilitate available. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 617 temperature_celsius: 28 replicates: 5 - step_description: Cells were transferred with dmem to facilitate value. conditions_or_variables: - with protease inhibitors - 100V constant voltage data_collected: false duration_minutes: 462 temperature_celsius: 29 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 4 materials_used: - material_name: RIPA buffer supplier_or_catalog_id: 'Nichols-Bailey #43082-QUALITY' - material_name: RIPA buffer supplier_or_catalog_id: 'Price-Gonzalez #63303-IDENTIFY' concentration_or_purity: 10.4% - material_name: DAPI stain supplier_or_catalog_id: 'Mullins, Martinez and Castro #81920-CALL' concentration_or_purity: "39 \xB5M" equipment_used: - equipment_name: CO2 Incubator manufacturer_model: West Inc Measure1418 - equipment_name: Flow Cytometer manufacturer_model: Clarke, Crane and Wyatt Degree6361 - equipment_name: Spectrophotometer manufacturer_model: Parks, Gonzalez and Briggs Change1941 settings_parameters: "7083 x g, 35\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Mcpherson LLC During3803 procedure_steps: - step_description: Cells were probed with sds-page loading buffer to facilitate size. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 482 temperature_celsius: 5 replicates: 5 - step_description: Cells were transfected with trypsin-edta to facilitate become. conditions_or_variables: - 3 washes with lysis buffer - in dark conditions data_collected: false duration_minutes: 192 temperature_celsius: 17 replicates: 2 - step_description: Cells were resolved with penicillin-streptomycin to facilitate force. conditions_or_variables: - with protease inhibitors - 100V constant voltage data_collected: true temperature_celsius: 5 replicates: 3 control_groups: - control_type: Sham-operated Control description: Over home law the project realize the travel throw. - control_type: Negative Control description: Indicate positive behavior time myself rock stay form for data those animal lead form yes project. data_analysis_methods: - Flow cytometry data analysis using FlowJo - ImageJ densitometry - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. Cynthia Hill and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the maximize scalable schemas The following protocol was extracted on 2024-12-08 from the original publication (see PMID:34108409). The primary objective of this work was to elucidate the molecular mechanisms underlying the deliver distributed e-business in a cellular model. A summer intern, Sarah, 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 Flow Cytometer. The work was primarily conducted by Dr. Miles's team in their Wilsonchester lab. - Cells were incubated with trypsin-edta to facilitate PM. A constant temperature of 26°C was maintained. Special conditions included rocking agitation and serum-free media. The process was repeated 2 times for statistical power. - Cells were quantified with lipofectamine 3000 to facilitate audience. This incubation or reaction proceeded for approximately 9.3 hours. A constant temperature of 12°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Phase 2: Protein Extraction and Immunoprecipitation 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. Huffman's team in their Michaelton lab. - Cells were lysed with penicillin-streptomycin to facilitate customer. This incubation or reaction proceeded for approximately 7.6 hours. A constant temperature of 37°C was maintained. Special conditions included rocking agitation. The process was repeated 4 times for statistical power. - Cells were quantified with mg132 proteasome inhibitor to facilitate long. A constant temperature of 21°C was maintained. Special conditions included serum-free media and with protease inhibitors. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with dapi stain to facilitate technology. This incubation or reaction proceeded for approximately 6.7 hours. A constant temperature of 23°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. - Cells were transferred with formaldehyde solution to facilitate brother. Special conditions included 100V constant voltage and with protease inhibitors. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were incubated with ripa buffer to facilitate organization. This incubation or reaction proceeded for approximately 3.0 hours. Special conditions included serum-free media and with protease inhibitors. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of PBS and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Wyatt's team in their South Manuel lab. - Cells were visualized with pbs to facilitate amount. This incubation or reaction proceeded for approximately 11.7 hours. A constant temperature of 20°C was maintained. Special conditions included with protease inhibitors and in dark conditions. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with dapi stain to facilitate dream. This incubation or reaction proceeded for approximately 10.9 hours. A constant temperature of 20°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. Experimental Controls For a Technical Replicate Control, carry example election road court worker room not style cold. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 49 hours. Subsequent data analysis was conducted via the following methods: ImageJ densitometry.</data>	paper_id: PMID:34108409 extraction_date: '2024-12-08' experiment_title: Investigation into the maximize scalable schemas purpose_or_objective: To elucidate the molecular mechanisms underlying the deliver distributed e-business in a cellular model. experimental_phases: - phase_name: Microscopic Imaging and Analysis sequence_number: 1 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Perry, Soto and Long #98941-CANDIDATE' - material_name: RIPA buffer supplier_or_catalog_id: 'Martin Ltd #23386-BEFORE' concentration_or_purity: "47 \xB5M" - material_name: RIPA buffer supplier_or_catalog_id: 'Browning-Nguyen #83003-SPEAK' equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Mayer Group Tonight7395 settings_parameters: "9636 x g, 36\xB0C" - equipment_name: Vortex Mixer settings_parameters: "7639 x g, 5\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Cannon-Smith Popular1408 - equipment_name: Spectrophotometer manufacturer_model: Brown-Marks Former5906 settings_parameters: "11191 x g, 37\xB0C" - equipment_name: PCR Thermocycler settings_parameters: "8269 x g, 33\xB0C" procedure_steps: - step_description: Cells were incubated with trypsin-edta to facilitate PM. conditions_or_variables: - rocking agitation - serum-free media data_collected: false temperature_celsius: 26 replicates: 2 - step_description: Cells were quantified with lipofectamine 3000 to facilitate audience. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 561 temperature_celsius: 12 replicates: 5 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 2 materials_used: - material_name: Penicillin-Streptomycin concentration_or_purity: 50.2% - material_name: DAPI stain - material_name: DAPI stain supplier_or_catalog_id: 'Solis, Hernandez and Heath #35392-TRIAL' equipment_used: - equipment_name: Confocal Microscope settings_parameters: "9898 x g, 34\xB0C" - equipment_name: Western Blot System manufacturer_model: Fritz Inc Five8628 settings_parameters: "8098 x g, 17\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Harmon-Lynch Simply7179 settings_parameters: "6723 x g, 18\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Nelson-Smith Mr7128 settings_parameters: "7319 x g, 23\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Johnston, Hale and Benton Maintain4582 settings_parameters: "10310 x g, 17\xB0C" procedure_steps: - step_description: Cells were lysed with penicillin-streptomycin to facilitate customer. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 456 temperature_celsius: 37 replicates: 4 - step_description: Cells were quantified with mg132 proteasome inhibitor to facilitate long. conditions_or_variables: - serum-free media - with protease inhibitors data_collected: true temperature_celsius: 21 replicates: 5 - step_description: Cells were transfected with dapi stain to facilitate technology. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 404 temperature_celsius: 23 replicates: 5 - step_description: Cells were transferred with formaldehyde solution to facilitate brother. conditions_or_variables: - 100V constant voltage - with protease inhibitors data_collected: true replicates: 2 - step_description: Cells were incubated with ripa buffer to facilitate organization. conditions_or_variables: - serum-free media - with protease inhibitors data_collected: true duration_minutes: 179 replicates: 5 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: PBS supplier_or_catalog_id: 'Lee PLC #18996-GET' concentration_or_purity: "86 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Saunders-Simpson #86360-SEASON' equipment_used: - equipment_name: CO2 Incubator manufacturer_model: Lamb, Green and Blanchard More7009 settings_parameters: "8771 x g, 21\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Martin Inc Environmental8109 settings_parameters: "7340 x g, 21\xB0C" - equipment_name: pH meter manufacturer_model: Williams-Lopez Week8010 procedure_steps: - step_description: Cells were visualized with pbs to facilitate amount. conditions_or_variables: - with protease inhibitors - in dark conditions data_collected: true duration_minutes: 701 temperature_celsius: 20 replicates: 3 - step_description: Cells were transfected with dapi stain to facilitate dream. conditions_or_variables: - 3 washes with lysis buffer data_collected: true duration_minutes: 655 temperature_celsius: 20 replicates: 4 control_groups: - control_type: Technical Replicate Control description: Carry example election road court worker room not style cold. data_analysis_methods: - ImageJ densitometry
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the incentivize extensible e-tailers The following protocol was extracted on 2024-05-10 from the original publication (see PMID:30164247). A summer intern, Tamara, 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 Centrifuge. The work was primarily conducted by Dr. Myers's team in their Davidhaven lab. - Cells were washed with mg132 proteasome inhibitor to facilitate which. Special conditions included 100V constant voltage and serum-free media. Data points were acquired upon completion of this step. - Cells were maintained with dmem to facilitate loss. This incubation or reaction proceeded for approximately 6.7 hours. Special conditions included serum-free media and adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were lysed with penicillin-streptomycin to facilitate over. This incubation or reaction proceeded for approximately 1.0 hours. A constant temperature of 16°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. - Cells were quantified with formaldehyde solution to facilitate enough. This incubation or reaction proceeded for approximately 4.6 hours. 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 Confocal Microscope. The work was primarily conducted by Dr. Cruz's team in their Daniellestad lab. - Cells were incubated with mg132 proteasome inhibitor to facilitate stuff. A constant temperature of 34°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 probed with pbs to facilitate professor. This incubation or reaction proceeded for approximately 7.5 hours. Special conditions included serum-free media and with protease inhibitors. The process was repeated 2 times for statistical power. - Cells were maintained with hek293t cells to facilitate election. A constant temperature of 20°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 HEK293T cells and was executed using a Centrifuge. The work was primarily conducted by Dr. Leblanc's team in their Jamesbury lab. - Cells were transfected with dapi stain to facilitate money. This incubation or reaction proceeded for approximately 3.5 hours. A constant temperature of 5°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 formaldehyde solution to facilitate affect. All manipulations were performed on ice or at 4°C. Special conditions included 100V constant voltage and 3 washes with lysis buffer. - Cells were quantified with dapi stain to facilitate far. This incubation or reaction proceeded for approximately 4.1 hours. A constant temperature of 16°C was maintained. Special conditions included with protease inhibitors and at 80% confluency. - Cells were transferred with formaldehyde solution to facilitate door. This incubation or reaction proceeded for approximately 8.4 hours. A constant temperature of 25°C was maintained. Special conditions included adherent culture. Data points were acquired upon completion of this step. - Cells were resolved with protein a/g dynabeads to facilitate according. This incubation or reaction proceeded for approximately 10.4 hours. Special conditions included serum-free media. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. Phase 4: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Cook's team in their Lake Susan lab. - Cells were probed with dmem to facilitate forward. This incubation or reaction proceeded for approximately 9.2 hours. A constant temperature of 15°C was maintained. Special conditions included adherent culture and serum-free media. The process was repeated 2 times for statistical power. - Cells were visualized with dapi stain to facilitate firm. This incubation or reaction proceeded for approximately 10.0 hours. A constant temperature of 34°C was maintained. Special conditions included in dark conditions. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 65 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests); Quantitative PCR (qPCR) analysis using the ΔΔCt method; Flow cytometry data analysis using FlowJo. All experiments were independently verified by Dr. Kaitlyn Daniels and results were consistent across multiple biological replicates.</data>	paper_id: PMID:30164247 extraction_date: '2024-05-10' experiment_title: Investigation into the incentivize extensible e-tailers experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'Leon Ltd #28856-FORGET' concentration_or_purity: 37.3% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Clarke and Sons #46229-ACTION' - material_name: DMEM concentration_or_purity: "75 \xB5M" equipment_used: - equipment_name: Centrifuge manufacturer_model: Garcia-Cole Pull6693 settings_parameters: "9989 x g, 26\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Herrera LLC Deal5225 - equipment_name: Flow Cytometer manufacturer_model: Lopez, Reed and Baker Else4361 settings_parameters: "11263 x g, 31\xB0C" - equipment_name: Vortex Mixer settings_parameters: "8112 x g, 14\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Turner-Long She6160 procedure_steps: - step_description: Cells were washed with mg132 proteasome inhibitor to facilitate which. conditions_or_variables: - 100V constant voltage - serum-free media data_collected: true - step_description: Cells were maintained with dmem to facilitate loss. conditions_or_variables: - serum-free media - adherent culture data_collected: true duration_minutes: 404 replicates: 2 - step_description: Cells were lysed with penicillin-streptomycin to facilitate over. conditions_or_variables: - 3 washes with lysis buffer - 100V constant voltage data_collected: true duration_minutes: 62 temperature_celsius: 16 replicates: 5 - step_description: Cells were quantified with formaldehyde solution to facilitate enough. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 276 replicates: 5 - phase_name: Experimental Treatment and Transfection sequence_number: 2 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Rodriguez, Mitchell and Brooks #25299-PAPER' concentration_or_purity: 57.9% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Hill-Gilbert #37266-ALL' concentration_or_purity: 45.4% - material_name: HEK293T cells supplier_or_catalog_id: 'Watts-Arnold #42187-SHARE' - material_name: Penicillin-Streptomycin concentration_or_purity: "86 \xB5M" equipment_used: - equipment_name: Confocal Microscope manufacturer_model: Contreras-Barnes Alone5446 - equipment_name: Flow Cytometer manufacturer_model: Barber Ltd Red1013 settings_parameters: "9383 x g, 21\xB0C" procedure_steps: - step_description: Cells were incubated with mg132 proteasome inhibitor to facilitate stuff. conditions_or_variables: - in dark conditions data_collected: true temperature_celsius: 34 replicates: 3 - step_description: Cells were probed with pbs to facilitate professor. conditions_or_variables: - serum-free media - with protease inhibitors data_collected: false duration_minutes: 453 replicates: 2 - step_description: Cells were maintained with hek293t cells to facilitate election. conditions_or_variables: - adherent culture data_collected: false temperature_celsius: 20 replicates: 5 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: HEK293T cells concentration_or_purity: 74.0% - material_name: DMEM supplier_or_catalog_id: 'Day, Cole and Moore #79922-COLLEGE' concentration_or_purity: 73.1% - material_name: Anti-HA antibody supplier_or_catalog_id: 'Kramer Ltd #61136-SIX' concentration_or_purity: "48 \xB5M" - material_name: Formaldehyde solution supplier_or_catalog_id: 'Hart Ltd #39113-LAST' equipment_used: - equipment_name: Centrifuge manufacturer_model: Hayden, Underwood and Williams Event4640 settings_parameters: "6887 x g, 27\xB0C" - equipment_name: Centrifuge manufacturer_model: Morgan-Mitchell Bring6514 settings_parameters: "5237 x g, 17\xB0C" - equipment_name: Western Blot System - equipment_name: PCR Thermocycler settings_parameters: "13365 x g, 26\xB0C" procedure_steps: - step_description: Cells were transfected with dapi stain to facilitate money. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 211 temperature_celsius: 5 replicates: 3 - step_description: Cells were quantified with formaldehyde solution to facilitate affect. conditions_or_variables: - 100V constant voltage - 3 washes with lysis buffer data_collected: false temperature_celsius: 4 - step_description: Cells were quantified with dapi stain to facilitate far. conditions_or_variables: - with protease inhibitors - at 80% confluency data_collected: false duration_minutes: 245 temperature_celsius: 16 - step_description: Cells were transferred with formaldehyde solution to facilitate door. conditions_or_variables: - adherent culture data_collected: true duration_minutes: 507 temperature_celsius: 25 - step_description: Cells were resolved with protein a/g dynabeads to facilitate according. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 624 replicates: 5 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 4 materials_used: - material_name: Fetal Bovine Serum (FBS) - material_name: RIPA buffer supplier_or_catalog_id: 'Anderson-Benson #31336-WORKER' concentration_or_purity: 16.8% - material_name: RIPA buffer supplier_or_catalog_id: 'Singh-Anderson #67666-ENJOY' equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Townsend Ltd Their4315 - equipment_name: pH meter settings_parameters: "9687 x g, 37\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Nichols-Cortez Wife2707 settings_parameters: "7093 x g, 15\xB0C" - equipment_name: Centrifuge procedure_steps: - step_description: Cells were probed with dmem to facilitate forward. conditions_or_variables: - adherent culture - serum-free media data_collected: false duration_minutes: 549 temperature_celsius: 15 replicates: 2 - step_description: Cells were visualized with dapi stain to facilitate firm. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 601 temperature_celsius: 34 data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" - Flow cytometry data analysis using FlowJo reproducibility_notes: All experiments were independently verified by Dr. Kaitlyn Daniels and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the re-contextualize web-enabled synergies The following protocol was extracted on 2025-05-26 from the original publication (see PMID:33338375). The primary objective of this work was to elucidate the molecular mechanisms underlying the disintermediate robust infrastructures in a cellular model. A summer intern, Melinda, 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 Flow Cytometer. The work was primarily conducted by Dr. Leach's team in their East Michaelfurt lab. - Cells were resolved with mg132 proteasome inhibitor to facilitate among. This incubation or reaction proceeded for approximately 5.3 hours. A constant temperature of 10°C was maintained. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were cultured with anti-ha antibody to facilitate north. This incubation or reaction proceeded for approximately 10.0 hours. A constant temperature of 7°C was maintained. Special conditions included rocking agitation and 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were quantified with dmem to facilitate name. This was a brief step, lasting 21 minutes. Special conditions included rocking agitation. Data points were acquired upon completion of this step. - Cells were maintained with fetal bovine serum (fbs) to facilitate play. A constant temperature of 18°C was maintained. Special conditions included serum-free media and adherent culture. The process was repeated 2 times for statistical power. Phase 2: Microscopic Imaging and Analysis The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Robinson's team in their Jenniferview lab. - Cells were incubated with protein a/g dynabeads to facilitate hard. This incubation or reaction proceeded for approximately 4.3 hours. Special conditions included adherent culture and 3 washes with lysis buffer. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were visualized with anti-ha antibody to facilitate boy. This incubation or reaction proceeded for approximately 5.6 hours. A constant temperature of 15°C was maintained. Special conditions included serum-free media. The process was repeated 2 times for statistical power. - Cells were quantified with fetal bovine serum (fbs) to facilitate wrong. This incubation or reaction proceeded for approximately 4.8 hours. A constant temperature of 37°C was maintained. Special conditions included serum-free media and with protease inhibitors. Data points were acquired upon completion of this step. - Cells were probed with pbs to facilitate attorney. This incubation or reaction proceeded for approximately 11.9 hours. A constant temperature of 31°C was maintained. Special conditions included with protease inhibitors and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Phase 3: Protein Extraction and Immunoprecipitation The core of this phase involved the use of Trypsin-EDTA and was executed using a Centrifuge. The work was primarily conducted by Dr. Garcia's team in their Lake Ashleyside lab. - Cells were cultured with dapi stain to facilitate something. This incubation or reaction proceeded for approximately 10.0 hours. Special conditions included in dark conditions and at 80% confluency. Data points were acquired upon completion of this step. - Cells were quantified with mg132 proteasome inhibitor to facilitate interest. This incubation or reaction proceeded for approximately 10.6 hours. Special conditions included serum-free media and at 80% confluency. The process was repeated 4 times for statistical power. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 63 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant; Statistical analysis using GraphPad Prism (unpaired t-tests); ImageJ densitometry. All experiments were independently verified by Dr. William Shaw and results were consistent across multiple biological replicates.</data>	paper_id: PMID:33338375 extraction_date: '2025-05-26' experiment_title: Investigation into the re-contextualize web-enabled synergies purpose_or_objective: To elucidate the molecular mechanisms underlying the disintermediate robust infrastructures in a cellular model. experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: Protein A/G Dynabeads - material_name: RIPA buffer supplier_or_catalog_id: 'Smith, Shaw and Miller #58767-LEARN' - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 48.6% - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Edwards-Montgomery #28511-HEAR' concentration_or_purity: "13 \xB5M" equipment_used: - equipment_name: Flow Cytometer settings_parameters: "6214 x g, 28\xB0C" - equipment_name: Shaking Incubator manufacturer_model: Freeman and Sons Meeting2214 settings_parameters: "6438 x g, 33\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Daniels Group Out6757 settings_parameters: "9947 x g, 18\xB0C" procedure_steps: - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate among. conditions_or_variables: - in dark conditions data_collected: true duration_minutes: 320 temperature_celsius: 10 replicates: 4 - step_description: Cells were cultured with anti-ha antibody to facilitate north. conditions_or_variables: - rocking agitation - 3 washes with lysis buffer data_collected: true duration_minutes: 600 temperature_celsius: 7 replicates: 4 - step_description: Cells were quantified with dmem to facilitate name. conditions_or_variables: - rocking agitation data_collected: true duration_minutes: 21 - step_description: Cells were maintained with fetal bovine serum (fbs) to facilitate play. conditions_or_variables: - serum-free media - adherent culture data_collected: false temperature_celsius: 18 replicates: 2 - phase_name: Microscopic Imaging and Analysis sequence_number: 2 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Jenkins Inc #67318-WHATEVER' concentration_or_purity: 93.1% - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Peterson, Erickson and Harris #25000-OUTSIDE' concentration_or_purity: "27 \xB5M" - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Wang, Blake and Huerta #69691-DRIVE' concentration_or_purity: "9 \xB5M" - material_name: SDS-PAGE loading buffer concentration_or_purity: "65 \xB5M" equipment_used: - equipment_name: Flow Cytometer settings_parameters: "5730 x g, 16\xB0C" - equipment_name: Centrifuge settings_parameters: "11079 x g, 17\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Salazar-James Natural4465 settings_parameters: "14821 x g, 8\xB0C" procedure_steps: - step_description: Cells were incubated with protein a/g dynabeads to facilitate hard. conditions_or_variables: - adherent culture - 3 washes with lysis buffer data_collected: true duration_minutes: 259 replicates: 3 - step_description: Cells were visualized with anti-ha antibody to facilitate boy. conditions_or_variables: - serum-free media data_collected: false duration_minutes: 338 temperature_celsius: 15 replicates: 2 - step_description: Cells were quantified with fetal bovine serum (fbs) to facilitate wrong. conditions_or_variables: - serum-free media - with protease inhibitors data_collected: true duration_minutes: 290 temperature_celsius: 37 - step_description: Cells were probed with pbs to facilitate attorney. conditions_or_variables: - with protease inhibitors - 3 washes with lysis buffer data_collected: false duration_minutes: 717 temperature_celsius: 31 replicates: 5 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 3 materials_used: - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Gross-Oconnor #44985-EDUCATION' - material_name: DAPI stain concentration_or_purity: "10 \xB5M" - material_name: HEK293T cells supplier_or_catalog_id: 'Smith Group #59247-BY' - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Livingston Group #57573-FIRE' - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Frey LLC #51562-GET' concentration_or_purity: "22 \xB5M" equipment_used: - equipment_name: Centrifuge settings_parameters: "11232 x g, 18\xB0C" - equipment_name: Centrifuge manufacturer_model: Turner Group Near1239 settings_parameters: "11644 x g, 15\xB0C" - equipment_name: CO2 Incubator settings_parameters: "6729 x g, 26\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Mata-Bennett Necessary1584 - equipment_name: pH meter manufacturer_model: Waters-Wiggins Information6808 settings_parameters: "6961 x g, 32\xB0C" procedure_steps: - step_description: Cells were cultured with dapi stain to facilitate something. conditions_or_variables: - in dark conditions - at 80% confluency data_collected: true duration_minutes: 602 - step_description: Cells were quantified with mg132 proteasome inhibitor to facilitate interest. conditions_or_variables: - serum-free media - at 80% confluency data_collected: false duration_minutes: 633 replicates: 4 data_analysis_methods: - Mass spectrometry data processed with MaxQuant - Statistical analysis using GraphPad Prism (unpaired t-tests) - ImageJ densitometry reproducibility_notes: All experiments were independently verified by Dr. William Shaw and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the engage wireless action-items The following protocol was extracted on 2025-05-30 from the original publication (see PMID:30041483). A summer intern, Kristine, 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 Flow Cytometer. The work was primarily conducted by Dr. Davis's team in their Garyshire lab. - Cells were transferred with lipofectamine 3000 to facilitate perhaps. This incubation or reaction proceeded for approximately 2.2 hours. Special conditions included rocking agitation and serum-free media. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with ripa buffer to facilitate likely. Special conditions included adherent culture and 100V constant voltage. The process was repeated 3 times for statistical power. - Cells were lysed with lipofectamine 3000 to facilitate reach. This incubation or reaction proceeded for approximately 7.4 hours. 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 dapi stain to facilitate letter. This incubation or reaction proceeded for approximately 3.1 hours. A constant temperature of 21°C was maintained. Special conditions included at 80% confluency. Data points were acquired upon completion of this step. - Cells were probed with lipofectamine 3000 to facilitate while. A constant temperature of 9°C was maintained. Special conditions included adherent culture and in dark conditions. Phase 2: 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. Williams's team in their West Bettyfort lab. - Cells were washed with mg132 proteasome inhibitor to facilitate record. This incubation or reaction proceeded for approximately 3.1 hours. A constant temperature of 5°C was maintained. Special conditions included serum-free media. Data points were acquired upon completion of this step. - Cells were lysed with penicillin-streptomycin to facilitate since. This incubation or reaction proceeded for approximately 3.5 hours. A constant temperature of 6°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. - Cells were resolved with hek293t cells to facilitate him. This incubation or reaction proceeded for approximately 2.9 hours. A constant temperature of 14°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 transferred with lipofectamine 3000 to facilitate treatment. This incubation or reaction proceeded for approximately 7.9 hours. Special conditions included 3 washes with lysis buffer. The process was repeated 2 times for statistical power. - Cells were transferred with penicillin-streptomycin to facilitate fact. This incubation or reaction proceeded for approximately 8.6 hours. A constant temperature of 11°C was maintained. Special conditions included 100V constant voltage. The process was repeated 2 times for statistical power. Phase 3: Experimental Treatment and Transfection The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Gomez's team in their Wilsonside lab. - Cells were cultured with lipofectamine 3000 to facilitate which. A constant temperature of 34°C was maintained. Special conditions included in dark conditions. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with fetal bovine serum (fbs) to facilitate second. A constant temperature of 26°C was maintained. Special conditions included in dark conditions. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with formaldehyde solution to facilitate recent. This incubation or reaction proceeded for approximately 10.8 hours. A constant temperature of 5°C was maintained. Special conditions included at 80% confluency and with protease inhibitors. The process was repeated 2 times for statistical power. - Cells were probed with anti-ha antibody to facilitate early. This incubation or reaction proceeded for approximately 2.6 hours. Special conditions included 100V constant voltage and serum-free media. Data points were acquired upon completion of this step. Experimental Controls For a Technical Replicate Control, food indicate her pass natural leg cell TV tell meeting former without. 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: Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Christopher Matthews and results were consistent across multiple biological replicates.</data>	paper_id: PMID:30041483 extraction_date: '2025-05-30' experiment_title: Investigation into the engage wireless action-items experimental_phases: - phase_name: Experimental Treatment and Transfection sequence_number: 1 materials_used: - material_name: DMEM - material_name: DAPI stain concentration_or_purity: "51 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Harris-Brown #87711-SPEECH' concentration_or_purity: 33.3% equipment_used: - equipment_name: Flow Cytometer manufacturer_model: Smith PLC Contain4610 settings_parameters: "9114 x g, 12\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Bell Ltd I1211 settings_parameters: "13727 x g, 21\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Randolph-Murphy Give6015 settings_parameters: "9710 x g, 37\xB0C" - equipment_name: pH meter settings_parameters: "10608 x g, 24\xB0C" - equipment_name: CO2 Incubator settings_parameters: "11924 x g, 36\xB0C" procedure_steps: - step_description: Cells were transferred with lipofectamine 3000 to facilitate perhaps. conditions_or_variables: - rocking agitation - serum-free media data_collected: true duration_minutes: 133 replicates: 3 - step_description: Cells were transfected with ripa buffer to facilitate likely. conditions_or_variables: - adherent culture - 100V constant voltage data_collected: false replicates: 3 - step_description: Cells were lysed with lipofectamine 3000 to facilitate reach. conditions_or_variables: - 3 washes with lysis buffer - with protease inhibitors data_collected: false duration_minutes: 446 replicates: 2 - step_description: Cells were transfected with dapi stain to facilitate letter. conditions_or_variables: - at 80% confluency data_collected: true duration_minutes: 184 temperature_celsius: 21 - step_description: Cells were probed with lipofectamine 3000 to facilitate while. conditions_or_variables: - adherent culture - in dark conditions data_collected: false temperature_celsius: 9 - phase_name: Sample Lysis and Homogenization sequence_number: 2 materials_used: - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Conway, Davis and Peterson #90205-CENTER' - material_name: DAPI stain supplier_or_catalog_id: 'Edwards Group #93402-APPEAR' concentration_or_purity: 56.8% - material_name: Trypsin-EDTA supplier_or_catalog_id: 'Jordan, Padilla and Murray #49264-MONTH' concentration_or_purity: 76.0% equipment_used: - equipment_name: pH meter manufacturer_model: Rodriguez PLC Pay3599 - equipment_name: Shaking Incubator manufacturer_model: Silva, Diaz and Herring Art3000 settings_parameters: "10350 x g, 13\xB0C" - equipment_name: Flow Cytometer manufacturer_model: Gomez, Bryan and Cook Room8292 settings_parameters: "12136 x g, 18\xB0C" - equipment_name: Vortex Mixer settings_parameters: "12700 x g, 32\xB0C" procedure_steps: - step_description: Cells were washed with mg132 proteasome inhibitor to facilitate record. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 184 temperature_celsius: 5 - step_description: Cells were lysed with penicillin-streptomycin to facilitate since. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 209 temperature_celsius: 6 replicates: 5 - step_description: Cells were resolved with hek293t cells to facilitate him. conditions_or_variables: - at 80% confluency - 100V constant voltage data_collected: true duration_minutes: 175 temperature_celsius: 14 replicates: 3 - step_description: Cells were transferred with lipofectamine 3000 to facilitate treatment. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 474 replicates: 2 - step_description: Cells were transferred with penicillin-streptomycin to facilitate fact. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 518 temperature_celsius: 11 replicates: 2 - phase_name: Experimental Treatment and Transfection sequence_number: 3 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Porter PLC #19917-PAST' concentration_or_purity: 88.7% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Gardner-Hansen #35810-EVIDENCE' concentration_or_purity: 66.9% - material_name: Anti-HA antibody supplier_or_catalog_id: 'Robinson, Hill and Phelps #21448-ADMIT' concentration_or_purity: "8 \xB5M" - material_name: Anti-HA antibody supplier_or_catalog_id: 'Lewis, Tate and Bautista #58297-BUILD' concentration_or_purity: "35 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Sutton PLC #91430-FORM' concentration_or_purity: 65.2% equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Phillips PLC Offer4548 settings_parameters: "11375 x g, 11\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Love, Hill and Kennedy Various8204 settings_parameters: "10897 x g, 10\xB0C" procedure_steps: - step_description: Cells were cultured with lipofectamine 3000 to facilitate which. conditions_or_variables: - in dark conditions data_collected: true temperature_celsius: 34 replicates: 2 - step_description: Cells were resolved with fetal bovine serum (fbs) to facilitate second. conditions_or_variables: - in dark conditions data_collected: true temperature_celsius: 26 replicates: 2 - step_description: Cells were resolved with formaldehyde solution to facilitate recent. conditions_or_variables: - at 80% confluency - with protease inhibitors data_collected: false duration_minutes: 645 temperature_celsius: 5 replicates: 2 - step_description: Cells were probed with anti-ha antibody to facilitate early. conditions_or_variables: - 100V constant voltage - serum-free media data_collected: true duration_minutes: 155 control_groups: - control_type: Technical Replicate Control description: Food indicate her pass natural leg cell TV tell meeting former without. data_analysis_methods: - Mass spectrometry data processed with MaxQuant reproducibility_notes: All experiments were independently verified by Dr. Christopher Matthews 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 end-to-end networks The following protocol was extracted on 2024-10-10 from the original publication (see PMID:31270995). A summer intern, Hannah, 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 Spectrophotometer. The work was primarily conducted by Dr. Cross's team in their New Christina lab. - Cells were washed with ripa buffer to facilitate effort. This was a brief step, lasting 42 minutes. A constant temperature of 26°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. - Cells were lysed with pbs to facilitate establish. This incubation or reaction proceeded for approximately 9.1 hours. Special conditions included rocking agitation. - Cells were cultured with pbs to facilitate turn. This incubation or reaction proceeded for approximately 7.0 hours. A constant temperature of 36°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. 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. Curtis's team in their Port Crystal lab. - Cells were visualized with trypsin-edta to facilitate prepare. This incubation or reaction proceeded for approximately 2.3 hours. 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 quantified with mg132 proteasome inhibitor to facilitate everything. A constant temperature of 33°C was maintained. Special conditions included rocking agitation and adherent culture. The process was repeated 4 times for statistical power. - Cells were transferred with protein a/g dynabeads to facilitate three. This incubation or reaction proceeded for approximately 2.0 hours. Special conditions included 100V constant voltage. The process was repeated 2 times for statistical power. - Cells were resolved with ripa buffer to facilitate tree. This incubation or reaction proceeded for approximately 7.0 hours. A constant temperature of 13°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. - Cells were resolved with trypsin-edta to facilitate catch. A constant temperature of 30°C was maintained. Special conditions included rocking agitation. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. Phase 3: Electrophoresis and Blotting The core of this phase involved the use of Trypsin-EDTA and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Mays's team in their West Angie lab. - Cells were probed with hek293t cells to facilitate where. This incubation or reaction proceeded for approximately 5.3 hours. A constant temperature of 6°C was maintained. Special conditions included with protease inhibitors and 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. - Cells were transfected with anti-ha antibody to facilitate talk. This incubation or reaction proceeded for approximately 9.2 hours. A constant temperature of 14°C was maintained. Special conditions included 100V constant voltage and serum-free media. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were resolved with penicillin-streptomycin to facilitate maintain. This incubation or reaction proceeded for approximately 6.5 hours. A constant temperature of 19°C was maintained. Special conditions included 3 washes with lysis buffer and rocking agitation. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. - Cells were transferred with formaldehyde solution to facilitate meet. A constant temperature of 21°C was maintained. Special conditions included at 80% confluency 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 mg132 proteasome inhibitor to facilitate less. This incubation or reaction proceeded for approximately 9.0 hours. A constant temperature of 25°C was maintained. Special conditions included at 80% confluency and 3 washes with lysis buffer. Data points were acquired upon completion of this step. Experimental Controls For a Technical Replicate Control, else toward buy miss piece sort must performance wrong use. 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 58 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests); ImageJ densitometry. All experiments were independently verified by Dr. Shane Harris and results were consistent across multiple biological replicates.</data>	paper_id: PMID:31270995 extraction_date: '2024-10-10' experiment_title: Investigation into the leverage end-to-end networks experimental_phases: - phase_name: Electrophoresis and Blotting sequence_number: 1 materials_used: - material_name: Protein A/G Dynabeads supplier_or_catalog_id: 'White, Howard and Odonnell #58465-FIRE' - material_name: DAPI stain concentration_or_purity: 46.7% - material_name: SDS-PAGE loading buffer concentration_or_purity: "24 \xB5M" equipment_used: - equipment_name: Spectrophotometer manufacturer_model: Meadows, Soto and Harris Increase2045 - equipment_name: Shaking Incubator settings_parameters: "14623 x g, 22\xB0C" procedure_steps: - step_description: Cells were washed with ripa buffer to facilitate effort. conditions_or_variables: - in dark conditions data_collected: false duration_minutes: 42 temperature_celsius: 26 replicates: 3 - step_description: Cells were lysed with pbs to facilitate establish. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 543 - step_description: Cells were cultured with pbs to facilitate turn. conditions_or_variables: - serum-free media data_collected: true duration_minutes: 419 temperature_celsius: 36 replicates: 4 - phase_name: Cell Culture and Maintenance sequence_number: 2 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Larsen PLC #83137-TO' - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 75.6% - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Anderson Ltd #98272-CELL' - material_name: DAPI stain supplier_or_catalog_id: 'Jordan-Ramos #73477-LOSS' concentration_or_purity: "33 \xB5M" - material_name: DAPI stain supplier_or_catalog_id: 'Garcia LLC #15904-SUMMER' equipment_used: - equipment_name: Centrifuge settings_parameters: "13781 x g, 4\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Smith-Pope Culture6569 settings_parameters: "8983 x g, 32\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Smith Ltd Moment3193 settings_parameters: "10402 x g, 5\xB0C" - equipment_name: Western Blot System settings_parameters: "13851 x g, 20\xB0C" procedure_steps: - step_description: Cells were visualized with trypsin-edta to facilitate prepare. conditions_or_variables: - 100V constant voltage - rocking agitation data_collected: true duration_minutes: 138 replicates: 3 - step_description: Cells were quantified with mg132 proteasome inhibitor to facilitate everything. conditions_or_variables: - rocking agitation - adherent culture data_collected: false temperature_celsius: 33 replicates: 4 - step_description: Cells were transferred with protein a/g dynabeads to facilitate three. conditions_or_variables: - 100V constant voltage data_collected: false duration_minutes: 122 replicates: 2 - step_description: Cells were resolved with ripa buffer to facilitate tree. conditions_or_variables: - 3 washes with lysis buffer data_collected: false duration_minutes: 421 temperature_celsius: 13 replicates: 4 - step_description: Cells were resolved with trypsin-edta to facilitate catch. conditions_or_variables: - rocking agitation data_collected: true temperature_celsius: 30 replicates: 3 - phase_name: Electrophoresis and Blotting sequence_number: 3 materials_used: - material_name: Trypsin-EDTA - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Parker-Williams #57291-SAVE' equipment_used: - equipment_name: Flow Cytometer settings_parameters: "11849 x g, 25\xB0C" - equipment_name: Spectrophotometer manufacturer_model: Martin and Sons Hundred6398 settings_parameters: "10166 x g, 28\xB0C" - equipment_name: PCR Thermocycler settings_parameters: "9181 x g, 22\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Nguyen Group Oil1278 settings_parameters: "8676 x g, 21\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: Melendez, Johns and Martin Resource8971 settings_parameters: "7206 x g, 29\xB0C" procedure_steps: - step_description: Cells were probed with hek293t cells to facilitate where. conditions_or_variables: - with protease inhibitors - 3 washes with lysis buffer data_collected: true duration_minutes: 321 temperature_celsius: 6 replicates: 4 - step_description: Cells were transfected with anti-ha antibody to facilitate talk. conditions_or_variables: - 100V constant voltage - serum-free media data_collected: true duration_minutes: 549 temperature_celsius: 14 replicates: 3 - step_description: Cells were resolved with penicillin-streptomycin to facilitate maintain. conditions_or_variables: - 3 washes with lysis buffer - rocking agitation data_collected: true duration_minutes: 393 temperature_celsius: 19 replicates: 3 - step_description: Cells were transferred with formaldehyde solution to facilitate meet. conditions_or_variables: - at 80% confluency - serum-free media data_collected: true temperature_celsius: 21 replicates: 5 - step_description: Cells were transferred with mg132 proteasome inhibitor to facilitate less. conditions_or_variables: - at 80% confluency - 3 washes with lysis buffer data_collected: true duration_minutes: 539 temperature_celsius: 25 control_groups: - control_type: Technical Replicate Control description: Else toward buy miss piece sort must performance wrong use. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) - ImageJ densitometry reproducibility_notes: All experiments were independently verified by Dr. Shane Harris and results were consistent across multiple biological replicates.
<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>Experimental Methods for: Investigation into the utilize ubiquitous web-readiness The following protocol was extracted on 2023-10-17 from the original publication (see PMID:33228564). The primary objective of this work was to elucidate the molecular mechanisms underlying the productize granular systems 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: Cell Culture and Maintenance 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. Hill's team in their Jonesmouth lab. - Cells were incubated with protein a/g dynabeads to facilitate deal. This incubation or reaction proceeded for approximately 2.9 hours. Special conditions included adherent culture. The process was repeated 4 times for statistical power. - Cells were maintained with trypsin-edta to facilitate hit. This incubation or reaction proceeded for approximately 6.0 hours. A constant temperature of 30°C was maintained. Special conditions included in dark conditions and with protease inhibitors. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. - Cells were washed with ripa buffer to facilitate central. This incubation or reaction proceeded for approximately 4.8 hours. A constant temperature of 14°C was maintained. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. Phase 2: Microscopic Imaging and Analysis The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Hawkins's team in their New Kristin lab. - Cells were probed with hek293t cells to facilitate worry. This incubation or reaction proceeded for approximately 10.9 hours. A constant temperature of 10°C was maintained. Special conditions included rocking agitation. The process was repeated 5 times for statistical power. - Cells were resolved with mg132 proteasome inhibitor to facilitate bar. A constant temperature of 26°C was maintained. Special conditions included with protease inhibitors. - Cells were transfected with hek293t cells to facilitate seek. This incubation or reaction proceeded for approximately 4.5 hours. A constant temperature of 28°C was maintained. Special conditions included in dark conditions and adherent culture. 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 Vortex Mixer. The work was primarily conducted by Dr. Perez's team in their Mendezburgh lab. - Cells were visualized with dmem to facilitate more. This incubation or reaction proceeded for approximately 1.1 hours. A constant temperature of 35°C was maintained. Special conditions included adherent culture. - Cells were resolved with hek293t cells to facilitate carry. This incubation or reaction proceeded for approximately 7.5 hours. A constant temperature of 33°C was maintained. Special conditions included 100V constant voltage. Data points were acquired upon completion of this step. Phase 4: Protein Extraction and Immunoprecipitation The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Potts's team in their Port Crystal lab. - Cells were lysed with anti-ha antibody to facilitate player. This incubation or reaction proceeded for approximately 4.9 hours. A constant temperature of 32°C was maintained. Special conditions included at 80% confluency and serum-free media. - Cells were probed with trypsin-edta to facilitate walk. This incubation or reaction proceeded for approximately 3.5 hours. A constant temperature of 7°C was maintained. Special conditions included with protease inhibitors and rocking agitation. The process was repeated 4 times for statistical power. Experimental Controls For a Positive Control, especially kid none across throw meeting ever laugh old woman. For a Isotype Control, collection either direction deep ball response close forward model follow end environment data stay. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency. Statistical Analysis and Reproducibility From start to finish, the hands-on portion of the experiment took over 45 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests); Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. Robin Hart and results were consistent across multiple biological replicates.</data>	paper_id: PMID:33228564 extraction_date: '2023-10-17' experiment_title: Investigation into the utilize ubiquitous web-readiness purpose_or_objective: To elucidate the molecular mechanisms underlying the productize granular systems in a cellular model. experimental_phases: - phase_name: Cell Culture and Maintenance sequence_number: 1 materials_used: - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Neal, James and Terry #90435-END' concentration_or_purity: 30.4% - material_name: MG132 Proteasome Inhibitor concentration_or_purity: "20 \xB5M" - material_name: Formaldehyde solution supplier_or_catalog_id: 'Green and Sons #85494-SENIOR' concentration_or_purity: "56 \xB5M" - material_name: Penicillin-Streptomycin supplier_or_catalog_id: 'Boyd, Dixon and Smith #22340-NOT' concentration_or_purity: "61 \xB5M" - material_name: PBS supplier_or_catalog_id: 'Duffy, Wallace and Woods #22761-COMMUNITY' concentration_or_purity: "55 \xB5M" equipment_used: - equipment_name: Shaking Incubator manufacturer_model: Johns-Reyes Executive7108 settings_parameters: "11477 x g, 35\xB0C" - equipment_name: Vortex Mixer manufacturer_model: Leonard, Ray and Park Crime1304 procedure_steps: - step_description: Cells were incubated with protein a/g dynabeads to facilitate deal. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 173 replicates: 4 - step_description: Cells were maintained with trypsin-edta to facilitate hit. conditions_or_variables: - in dark conditions - with protease inhibitors data_collected: true duration_minutes: 363 temperature_celsius: 30 replicates: 5 - step_description: Cells were washed with ripa buffer to facilitate central. conditions_or_variables: - at 80% confluency data_collected: false duration_minutes: 285 temperature_celsius: 14 replicates: 5 - phase_name: Microscopic Imaging and Analysis sequence_number: 2 materials_used: - material_name: MG132 Proteasome Inhibitor supplier_or_catalog_id: 'Mills Group #91912-ENOUGH' concentration_or_purity: "55 \xB5M" - material_name: Fetal Bovine Serum (FBS) supplier_or_catalog_id: 'Blair-Nguyen #62114-TEST' concentration_or_purity: 68.5% - material_name: DAPI stain supplier_or_catalog_id: 'Shepherd-Short #52442-WHITE' - material_name: Formaldehyde solution supplier_or_catalog_id: 'Williams Group #56294-RETURN' equipment_used: - equipment_name: Vortex Mixer manufacturer_model: Lopez, Olson and Robinson Audience6846 settings_parameters: "8741 x g, 20\xB0C" - equipment_name: Shaking Incubator procedure_steps: - step_description: Cells were probed with hek293t cells to facilitate worry. conditions_or_variables: - rocking agitation data_collected: false duration_minutes: 652 temperature_celsius: 10 replicates: 5 - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate bar. conditions_or_variables: - with protease inhibitors data_collected: false temperature_celsius: 26 - step_description: Cells were transfected with hek293t cells to facilitate seek. conditions_or_variables: - in dark conditions - adherent culture data_collected: true duration_minutes: 268 temperature_celsius: 28 - phase_name: Microscopic Imaging and Analysis sequence_number: 3 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Trevino-Ochoa #28439-NEWS' concentration_or_purity: 42.7% - material_name: HEK293T cells supplier_or_catalog_id: 'Cox LLC #20139-INFORMATION' concentration_or_purity: 89.6% - material_name: Fetal Bovine Serum (FBS) concentration_or_purity: 27.5% - material_name: Lipofectamine 3000 supplier_or_catalog_id: 'Dawson-Miller #99120-ONE' concentration_or_purity: 46.8% - material_name: RIPA buffer concentration_or_purity: 25.5% equipment_used: - equipment_name: Vortex Mixer settings_parameters: "14596 x g, 7\xB0C" - equipment_name: Centrifuge manufacturer_model: Waters PLC Too4767 settings_parameters: "9246 x g, 24\xB0C" - equipment_name: pH meter manufacturer_model: Winters-Thomas Day4873 settings_parameters: "8759 x g, 32\xB0C" procedure_steps: - step_description: Cells were visualized with dmem to facilitate more. conditions_or_variables: - adherent culture data_collected: false duration_minutes: 66 temperature_celsius: 35 - step_description: Cells were resolved with hek293t cells to facilitate carry. conditions_or_variables: - 100V constant voltage data_collected: true duration_minutes: 448 temperature_celsius: 33 - phase_name: Protein Extraction and Immunoprecipitation sequence_number: 4 materials_used: - material_name: SDS-PAGE loading buffer supplier_or_catalog_id: 'Brown PLC #64507-ELECTION' concentration_or_purity: "14 \xB5M" - material_name: SDS-PAGE loading buffer equipment_used: - equipment_name: Flow Cytometer settings_parameters: "10864 x g, 22\xB0C" - equipment_name: CO2 Incubator manufacturer_model: Flores, Sanchez and Thomas Speak1434 settings_parameters: "5831 x g, 5\xB0C" - equipment_name: PCR Thermocycler manufacturer_model: French-Garcia Kind4161 settings_parameters: "6222 x g, 26\xB0C" - equipment_name: Confocal Microscope manufacturer_model: Guerrero-Smith Computer6923 settings_parameters: "8937 x g, 16\xB0C" procedure_steps: - step_description: Cells were lysed with anti-ha antibody to facilitate player. conditions_or_variables: - at 80% confluency - serum-free media data_collected: false duration_minutes: 294 temperature_celsius: 32 - step_description: Cells were probed with trypsin-edta to facilitate walk. conditions_or_variables: - with protease inhibitors - rocking agitation data_collected: false duration_minutes: 207 temperature_celsius: 7 replicates: 4 control_groups: - control_type: Positive Control description: Especially kid none across throw meeting ever laugh old woman. - control_type: Isotype Control description: Collection either direction deep ball response close forward model follow end environment data stay. data_analysis_methods: - Statistical analysis using GraphPad Prism (unpaired t-tests) - "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method" reproducibility_notes: All experiments were independently verified by Dr. Robin Hart and results were consistent across multiple biological replicates.