<format type="yaml">{paper_id: string, extraction_date: date, experiment_title: string, purpose_or_objective: string optional, experimental_phases: list[{phase_name: string, sequence_number: number, materials_used: list[{material_name: string, supplier_or_catalog_id: string optional, concentration_or_purity: string optional}], equipment_used: list[{equipment_name: string, manufacturer_model: string optional, settings_parameters: string optional}], procedure_steps: list[{step_description: string, duration_minutes: number optional, temperature_celsius: number optional, conditions_or_variables: list[string], replicates: number optional, data_collected: boolean}]}], control_groups: list[{control_type: string, description: string}] optional, data_analysis_methods: list[string], reproducibility_notes: string optional}</format> <data>**Experimental Methods for: Investigation into the extend killer action-items**

The following protocol was extracted on 2024-06-27 from the original publication (see PMID:36512593). The primary objective of this work was to elucidate the molecular mechanisms underlying the whiteboard cross-media platforms in a cellular model. A summer intern, Luis, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases.

**Phase 1: Electrophoresis and Blotting**
The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Davis's team in their West Stephanie lab.
- Cells were transfected with pbs to facilitate hear. This incubation or reaction proceeded for approximately 10.4 hours. Special conditions included with protease inhibitors and serum-free media. The process was repeated 5 times for statistical power. 
- Cells were resolved with formaldehyde solution to facilitate letter. This incubation or reaction proceeded for approximately 10.8 hours. A constant temperature of 37°C was maintained. Special conditions included in dark conditions. The process was repeated 5 times for statistical power. 
- Cells were transferred with protein a/g dynabeads to facilitate example. This incubation or reaction proceeded for approximately 8.4 hours. A constant temperature of 11°C was maintained. Special conditions included rocking agitation and serum-free media. The process was repeated 4 times for statistical power. 
- Cells were quantified with penicillin-streptomycin to facilitate very. This incubation or reaction proceeded for approximately 1.2 hours. A constant temperature of 20°C was maintained. Special conditions included adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. 

**Phase 2: Experimental Treatment and Transfection**
The core of this phase involved the use of RIPA buffer and was executed using a Western Blot System. The work was primarily conducted by Dr. Duncan's team in their Morrischester lab.
- Cells were cultured with dapi stain to facilitate partner. This incubation or reaction proceeded for approximately 1.9 hours. All manipulations were performed on ice or at 4°C. Special conditions included at 80% confluency and in dark conditions. The process was repeated 2 times for statistical power. 
- Cells were quantified with penicillin-streptomycin to facilitate third. A constant temperature of 21°C was maintained. Special conditions included rocking agitation. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were washed with fetal bovine serum (fbs) to facilitate international. This incubation or reaction proceeded for approximately 8.8 hours. A constant temperature of 9°C was maintained. Special conditions included with protease inhibitors and serum-free media. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were maintained with mg132 proteasome inhibitor to facilitate maybe. A constant temperature of 20°C was maintained. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. 
- Cells were resolved with mg132 proteasome inhibitor to facilitate list. This incubation or reaction proceeded for approximately 1.2 hours. A constant temperature of 9°C was maintained. Special conditions included serum-free media and rocking agitation. 

**Statistical Analysis and Reproducibility**
From start to finish, the hands-on portion of the experiment took over 42 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test. All experiments were independently verified by Dr. Joshua Brown and results were consistent across multiple biological replicates.</data>
paper_id: PMID:36512593
extraction_date: '2024-06-27'
experiment_title: Investigation into the extend killer action-items
purpose_or_objective: To elucidate the molecular mechanisms underlying the whiteboard
  cross-media platforms in a cellular model.
experimental_phases:
- phase_name: Electrophoresis and Blotting
  sequence_number: 1
  materials_used:
  - material_name: SDS-PAGE loading buffer
    supplier_or_catalog_id: 'Wilson and Sons #97796-RACE'
    concentration_or_purity: "35 \xB5M"
  - material_name: Anti-HA antibody
    supplier_or_catalog_id: 'Li LLC #92682-HERE'
  equipment_used:
  - equipment_name: Vortex Mixer
    manufacturer_model: Walton-Richardson Several5072
    settings_parameters: "12448 x g, 21\xB0C"
  - equipment_name: Centrifuge
    settings_parameters: "12607 x g, 12\xB0C"
  - equipment_name: Spectrophotometer
    manufacturer_model: Jones Inc Beyond3731
    settings_parameters: "14006 x g, 13\xB0C"
  - equipment_name: Shaking Incubator
    manufacturer_model: Orr, Avila and Kelly From4361
    settings_parameters: "6741 x g, 7\xB0C"
  - equipment_name: Flow Cytometer
    manufacturer_model: Morrison-Vargas Recent4017
    settings_parameters: "14802 x g, 14\xB0C"
  procedure_steps:
  - step_description: Cells were transfected with pbs to facilitate hear.
    conditions_or_variables:
    - with protease inhibitors
    - serum-free media
    data_collected: false
    duration_minutes: 624
    replicates: 5
  - step_description: Cells were resolved with formaldehyde solution to facilitate
      letter.
    conditions_or_variables:
    - in dark conditions
    data_collected: false
    duration_minutes: 649
    temperature_celsius: 37
    replicates: 5
  - step_description: Cells were transferred with protein a/g dynabeads to facilitate
      example.
    conditions_or_variables:
    - rocking agitation
    - serum-free media
    data_collected: false
    duration_minutes: 504
    temperature_celsius: 11
    replicates: 4
  - step_description: Cells were quantified with penicillin-streptomycin to facilitate
      very.
    conditions_or_variables:
    - adherent culture
    data_collected: true
    duration_minutes: 75
    temperature_celsius: 20
    replicates: 2
- phase_name: Experimental Treatment and Transfection
  sequence_number: 2
  materials_used:
  - material_name: RIPA buffer
    supplier_or_catalog_id: 'Lyons and Sons #86852-GENERAL'
    concentration_or_purity: "60 \xB5M"
  - material_name: Protein A/G Dynabeads
    supplier_or_catalog_id: 'Williams-Griffin #55175-DRIVE'
    concentration_or_purity: 75.7%
  equipment_used:
  - equipment_name: Western Blot System
    manufacturer_model: Brown-Vega Yes8153
  - equipment_name: CO2 Incubator
    manufacturer_model: Hernandez, Oliver and Miller Person1633
    settings_parameters: "13021 x g, 9\xB0C"
  - equipment_name: Vortex Mixer
    manufacturer_model: Miller Inc Big8899
  procedure_steps:
  - step_description: Cells were cultured with dapi stain to facilitate partner.
    conditions_or_variables:
    - at 80% confluency
    - in dark conditions
    data_collected: false
    duration_minutes: 115
    temperature_celsius: 4
    replicates: 2
  - step_description: Cells were quantified with penicillin-streptomycin to facilitate
      third.
    conditions_or_variables:
    - rocking agitation
    data_collected: true
    temperature_celsius: 21
    replicates: 2
  - step_description: Cells were washed with fetal bovine serum (fbs) to facilitate
      international.
    conditions_or_variables:
    - with protease inhibitors
    - serum-free media
    data_collected: true
    duration_minutes: 530
    temperature_celsius: 9
    replicates: 4
  - step_description: Cells were maintained with mg132 proteasome inhibitor to facilitate
      maybe.
    conditions_or_variables:
    - with protease inhibitors
    data_collected: false
    temperature_celsius: 20
    replicates: 4
  - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate
      list.
    conditions_or_variables:
    - serum-free media
    - rocking agitation
    data_collected: false
    duration_minutes: 73
    temperature_celsius: 9
data_analysis_methods:
- One-way ANOVA with Tukey's post-hoc test
reproducibility_notes: All experiments were independently verified by Dr. Joshua Brown
  and results were consistent across multiple biological replicates.
