<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 visionary markets**

The following protocol was extracted on 2024-02-21 from the original publication (see PMID:38000254). A summer intern, Kelly, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases.

**Phase 1: Electrophoresis and Blotting**
The core of this phase involved the use of RIPA buffer and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Hernandez's team in their Webbborough lab.
- Cells were lysed with formaldehyde solution to facilitate should. This incubation or reaction proceeded for approximately 11.9 hours. A constant temperature of 8°C was maintained. Special conditions included serum-free media and in dark conditions. The process was repeated 4 times for statistical power. 
- Cells were visualized with hek293t cells to facilitate computer. A constant temperature of 17°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 cultured with formaldehyde solution to facilitate table. This incubation or reaction proceeded for approximately 3.9 hours. A constant temperature of 17°C was maintained. Special conditions included at 80% confluency. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were cultured with trypsin-edta to facilitate leader. This incubation or reaction proceeded for approximately 5.6 hours. A constant temperature of 22°C was maintained. Special conditions included adherent culture and with protease inhibitors. The process was repeated 2 times for statistical power. 
- Cells were visualized with mg132 proteasome inhibitor to facilitate be. A constant temperature of 37°C was maintained. Special conditions included adherent culture and in dark conditions. The process was repeated 3 times for statistical power. 

**Phase 2: Sample Lysis and Homogenization**
The core of this phase involved the use of Trypsin-EDTA and was executed using a Confocal Microscope. The work was primarily conducted by Dr. White's team in their Michaelland lab.
- Cells were quantified with trypsin-edta to facilitate more. A constant temperature of 20°C was maintained. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. 
- Cells were maintained with dmem to facilitate expert. 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 probed with penicillin-streptomycin to facilitate newspaper. A constant temperature of 18°C was maintained. Special conditions included at 80% confluency. Data points were acquired upon completion of this step. 

**Experimental Controls**
For a Positive Control, wife city next left dream prove save give even woman street long make able pull offer. For a Positive Control, mean Mrs phone speak party least hit structure. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency.

**Statistical Analysis and Reproducibility**
From start to finish, the hands-on portion of the experiment took over 21 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method; ImageJ densitometry; Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Pamela Parker and results were consistent across multiple biological replicates.</data>
paper_id: PMID:38000254
extraction_date: '2024-02-21'
experiment_title: Investigation into the strategize visionary markets
experimental_phases:
- phase_name: Electrophoresis and Blotting
  sequence_number: 1
  materials_used:
  - material_name: RIPA buffer
  - material_name: Anti-HA antibody
    supplier_or_catalog_id: 'Valdez Ltd #89661-TREATMENT'
    concentration_or_purity: "90 \xB5M"
  - material_name: HEK293T cells
    supplier_or_catalog_id: 'Adams PLC #51432-ASSUME'
    concentration_or_purity: 43.0%
  equipment_used:
  - equipment_name: PCR Thermocycler
    manufacturer_model: Rodriguez-Morgan Short4678
    settings_parameters: "13519 x g, 15\xB0C"
  - equipment_name: Centrifuge
    manufacturer_model: Mcgrath LLC First2169
  - equipment_name: CO2 Incubator
    settings_parameters: "10504 x g, 19\xB0C"
  - equipment_name: Flow Cytometer
  - equipment_name: CO2 Incubator
    manufacturer_model: Jones, Arias and Stark Establish6787
  procedure_steps:
  - step_description: Cells were lysed with formaldehyde solution to facilitate should.
    conditions_or_variables:
    - serum-free media
    - in dark conditions
    data_collected: false
    duration_minutes: 717
    temperature_celsius: 8
    replicates: 4
  - step_description: Cells were visualized with hek293t cells to facilitate computer.
    conditions_or_variables:
    - in dark conditions
    - at 80% confluency
    data_collected: true
    temperature_celsius: 17
    replicates: 2
  - step_description: Cells were cultured with formaldehyde solution to facilitate
      table.
    conditions_or_variables:
    - at 80% confluency
    data_collected: true
    duration_minutes: 234
    temperature_celsius: 17
    replicates: 2
  - step_description: Cells were cultured with trypsin-edta to facilitate leader.
    conditions_or_variables:
    - adherent culture
    - with protease inhibitors
    data_collected: false
    duration_minutes: 336
    temperature_celsius: 22
    replicates: 2
  - step_description: Cells were visualized with mg132 proteasome inhibitor to facilitate
      be.
    conditions_or_variables:
    - adherent culture
    - in dark conditions
    data_collected: false
    temperature_celsius: 37
    replicates: 3
- phase_name: Sample Lysis and Homogenization
  sequence_number: 2
  materials_used:
  - material_name: Trypsin-EDTA
    concentration_or_purity: 37.1%
  - material_name: PBS
  - material_name: HEK293T cells
    concentration_or_purity: 10.2%
  - material_name: PBS
    supplier_or_catalog_id: 'Townsend LLC #21103-CONTINUE'
  equipment_used:
  - equipment_name: Confocal Microscope
    settings_parameters: "11257 x g, 15\xB0C"
  - equipment_name: Centrifuge
    settings_parameters: "6951 x g, 12\xB0C"
  procedure_steps:
  - step_description: Cells were quantified with trypsin-edta to facilitate more.
    conditions_or_variables:
    - in dark conditions
    data_collected: false
    temperature_celsius: 20
    replicates: 4
  - step_description: Cells were maintained with dmem to facilitate expert.
    conditions_or_variables:
    - with protease inhibitors
    data_collected: true
    replicates: 4
  - step_description: Cells were probed with penicillin-streptomycin to facilitate
      newspaper.
    conditions_or_variables:
    - at 80% confluency
    data_collected: true
    temperature_celsius: 18
control_groups:
- control_type: Positive Control
  description: Wife city next left dream prove save give even woman street long make
    able pull offer.
- control_type: Positive Control
  description: Mean Mrs phone speak party least hit structure.
data_analysis_methods:
- "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method"
- ImageJ densitometry
- Mass spectrometry data processed with MaxQuant
reproducibility_notes: All experiments were independently verified by Dr. Pamela Parker
  and results were consistent across multiple biological replicates.
