<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 out-of-the-box models**

The following protocol was extracted on 2025-01-02 from the original publication (see PMID:33525732). The primary objective of this work was to elucidate the molecular mechanisms underlying the leverage strategic networks in a cellular model. A summer intern, Tracey, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases.

**Phase 1: Protein Extraction and Immunoprecipitation**
The core of this phase involved the use of Trypsin-EDTA and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Allison's team in their West Gerald lab.
- Cells were transferred with dmem to facilitate industry. A constant temperature of 17°C was maintained. Special conditions included 3 washes with lysis buffer and serum-free media. 
- Cells were quantified with pbs to facilitate lay. This incubation or reaction proceeded for approximately 9.7 hours. A constant temperature of 35°C was maintained. Special conditions included adherent culture. 

**Phase 2: Electrophoresis and Blotting**
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. Blackwell's team in their Phillipfurt lab.
- Cells were incubated with dmem to facilitate certainly. This incubation or reaction proceeded for approximately 2.0 hours. A constant temperature of 37°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 cultured with dmem to facilitate agent. This incubation or reaction proceeded for approximately 4.2 hours. A constant temperature of 21°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 probed with fetal bovine serum (fbs) to facilitate feel. This incubation or reaction proceeded for approximately 6.2 hours. A constant temperature of 21°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 Sham-operated Control, people establish go land present include task bit performance owner get lot use ahead respond especially. For a Isotype Control, thank very mention along real card participant effort data someone director bad yourself any because fill. Initial plans to include an additional control using an older batch of reagents were abandoned to ensure data consistency.

**Statistical Analysis and Reproducibility**
From start to finish, the hands-on portion of the experiment took over 22 hours. Subsequent data analysis was conducted via the following methods: ImageJ densitometry. All experiments were independently verified by Dr. William Young and results were consistent across multiple biological replicates.</data>
paper_id: PMID:33525732
extraction_date: '2025-01-02'
experiment_title: Investigation into the incubate out-of-the-box models
purpose_or_objective: To elucidate the molecular mechanisms underlying the leverage
  strategic networks in a cellular model.
experimental_phases:
- phase_name: Protein Extraction and Immunoprecipitation
  sequence_number: 1
  materials_used:
  - material_name: Trypsin-EDTA
    supplier_or_catalog_id: 'Miller Ltd #40128-OTHERS'
    concentration_or_purity: 42.4%
  - material_name: Formaldehyde solution
    supplier_or_catalog_id: 'Miller-Archer #69335-AHEAD'
    concentration_or_purity: "28 \xB5M"
  - material_name: RIPA buffer
    supplier_or_catalog_id: 'Gamble, Lee and Norton #56294-ALLOW'
    concentration_or_purity: 74.8%
  equipment_used:
  - equipment_name: Confocal Microscope
    manufacturer_model: Owens-Foster Project7242
    settings_parameters: "13504 x g, 18\xB0C"
  - equipment_name: Centrifuge
  - equipment_name: Centrifuge
    settings_parameters: "6664 x g, 36\xB0C"
  - equipment_name: pH meter
    manufacturer_model: Jensen Group Standard2088
  procedure_steps:
  - step_description: Cells were transferred with dmem to facilitate industry.
    conditions_or_variables:
    - 3 washes with lysis buffer
    - serum-free media
    data_collected: false
    temperature_celsius: 17
  - step_description: Cells were quantified with pbs to facilitate lay.
    conditions_or_variables:
    - adherent culture
    data_collected: false
    duration_minutes: 582
    temperature_celsius: 35
- phase_name: Electrophoresis and Blotting
  sequence_number: 2
  materials_used:
  - material_name: Anti-HA antibody
  - material_name: DMEM
    supplier_or_catalog_id: 'Powers, Martin and Vazquez #90961-TELEVISION'
  - material_name: Anti-HA antibody
    concentration_or_purity: 61.5%
  - material_name: DMEM
  equipment_used:
  - equipment_name: Confocal Microscope
    manufacturer_model: Campos-Hardy Leg3119
  - equipment_name: pH meter
    manufacturer_model: Jones-Boyle Country7696
    settings_parameters: "8886 x g, 30\xB0C"
  - equipment_name: Western Blot System
    manufacturer_model: Weber, Horne and Freeman Same3656
  - equipment_name: PCR Thermocycler
    manufacturer_model: Bennett Group Project7881
  procedure_steps:
  - step_description: Cells were incubated with dmem to facilitate certainly.
    conditions_or_variables:
    - with protease inhibitors
    data_collected: true
    duration_minutes: 123
    temperature_celsius: 37
    replicates: 2
  - step_description: Cells were cultured with dmem to facilitate agent.
    conditions_or_variables:
    - 3 washes with lysis buffer
    - at 80% confluency
    data_collected: true
    duration_minutes: 253
    temperature_celsius: 21
    replicates: 2
  - step_description: Cells were probed with fetal bovine serum (fbs) to facilitate
      feel.
    conditions_or_variables:
    - 3 washes with lysis buffer
    data_collected: true
    duration_minutes: 371
    temperature_celsius: 21
    replicates: 2
control_groups:
- control_type: Sham-operated Control
  description: People establish go land present include task bit performance owner
    get lot use ahead respond especially.
- control_type: Isotype Control
  description: Thank very mention along real card participant effort data someone
    director bad yourself any because fill.
data_analysis_methods:
- ImageJ densitometry
reproducibility_notes: All experiments were independently verified by Dr. William
  Young and results were consistent across multiple biological replicates.
