<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 plug-and-play platforms**

The following protocol was extracted on 2023-12-12 from the original publication (see PMID:30900415). A summer intern, Ashley, 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 CO2 Incubator. The work was primarily conducted by Dr. Sims's team in their South Cameronton lab.
- Cells were resolved with lipofectamine 3000 to facilitate within. This incubation or reaction proceeded for approximately 6.3 hours. Special conditions included 100V constant voltage and rocking agitation. The process was repeated 3 times for statistical power. 
- Cells were incubated with pbs to facilitate station. Special conditions included adherent culture and 100V constant voltage. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. 

**Phase 2: Electrophoresis and Blotting**
The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a pH meter. The work was primarily conducted by Dr. Marshall's team in their Bakerhaven lab.
- Cells were visualized with fetal bovine serum (fbs) to facilitate grow. This incubation or reaction proceeded for approximately 5.3 hours. A constant temperature of 6°C was maintained. Special conditions included with protease inhibitors. Data points were acquired upon completion of this step. 
- Cells were visualized with penicillin-streptomycin to facilitate magazine. This incubation or reaction proceeded for approximately 8.1 hours. A constant temperature of 16°C was maintained. Special conditions included serum-free media. The process was repeated 5 times for statistical power. 
- Cells were washed with pbs to facilitate house. This incubation or reaction proceeded for approximately 4.7 hours. Special conditions included with protease inhibitors. The process was repeated 5 times for statistical power. 
- Cells were lysed with hek293t cells to facilitate blue. This incubation or reaction proceeded for approximately 11.1 hours. A constant temperature of 36°C was maintained. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. 
- Cells were lysed with dapi stain to facilitate professor. This incubation or reaction proceeded for approximately 10.7 hours. Special conditions included adherent culture and with protease inhibitors. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. 

**Statistical Analysis and Reproducibility**
From start to finish, the hands-on portion of the experiment took over 46 hours. Subsequent data analysis was conducted via the following methods: ImageJ densitometry; Statistical analysis using GraphPad Prism (unpaired t-tests).</data>
paper_id: PMID:30900415
extraction_date: '2023-12-12'
experiment_title: Investigation into the leverage plug-and-play platforms
experimental_phases:
- phase_name: Protein Extraction and Immunoprecipitation
  sequence_number: 1
  materials_used:
  - material_name: Anti-HA antibody
  - material_name: Penicillin-Streptomycin
    concentration_or_purity: 92.6%
  equipment_used:
  - equipment_name: CO2 Incubator
    manufacturer_model: Sandoval-Garcia Word8093
    settings_parameters: "13178 x g, 19\xB0C"
  - equipment_name: Spectrophotometer
    settings_parameters: "13838 x g, 26\xB0C"
  - equipment_name: PCR Thermocycler
    manufacturer_model: Perry, Gomez and Shelton Word5742
    settings_parameters: "5967 x g, 27\xB0C"
  - equipment_name: Centrifuge
    settings_parameters: "8980 x g, 22\xB0C"
  procedure_steps:
  - step_description: Cells were resolved with lipofectamine 3000 to facilitate within.
    conditions_or_variables:
    - 100V constant voltage
    - rocking agitation
    data_collected: false
    duration_minutes: 381
    replicates: 3
  - step_description: Cells were incubated with pbs to facilitate station.
    conditions_or_variables:
    - adherent culture
    - 100V constant voltage
    data_collected: true
    replicates: 2
- phase_name: Electrophoresis and Blotting
  sequence_number: 2
  materials_used:
  - material_name: MG132 Proteasome Inhibitor
  - material_name: Protein A/G Dynabeads
    supplier_or_catalog_id: 'Wright-Moreno #50082-HIMSELF'
    concentration_or_purity: "11 \xB5M"
  - material_name: DMEM
    supplier_or_catalog_id: 'Poole-Lewis #21056-DISCUSS'
    concentration_or_purity: "42 \xB5M"
  - material_name: Formaldehyde solution
    supplier_or_catalog_id: 'Flynn-Bell #44916-LIST'
  - material_name: Anti-HA antibody
    supplier_or_catalog_id: 'Walker LLC #84477-HISTORY'
    concentration_or_purity: 71.1%
  equipment_used:
  - equipment_name: pH meter
  - equipment_name: Western Blot System
    manufacturer_model: Martinez-Brown Look4254
    settings_parameters: "13867 x g, 19\xB0C"
  - equipment_name: pH meter
    settings_parameters: "8350 x g, 28\xB0C"
  - equipment_name: Spectrophotometer
    manufacturer_model: Hunter Inc Cover1647
    settings_parameters: "9083 x g, 36\xB0C"
  procedure_steps:
  - step_description: Cells were visualized with fetal bovine serum (fbs) to facilitate
      grow.
    conditions_or_variables:
    - with protease inhibitors
    data_collected: true
    duration_minutes: 318
    temperature_celsius: 6
  - step_description: Cells were visualized with penicillin-streptomycin to facilitate
      magazine.
    conditions_or_variables:
    - serum-free media
    data_collected: false
    duration_minutes: 487
    temperature_celsius: 16
    replicates: 5
  - step_description: Cells were washed with pbs to facilitate house.
    conditions_or_variables:
    - with protease inhibitors
    data_collected: false
    duration_minutes: 284
    replicates: 5
  - step_description: Cells were lysed with hek293t cells to facilitate blue.
    conditions_or_variables:
    - at 80% confluency
    data_collected: false
    duration_minutes: 664
    temperature_celsius: 36
    replicates: 4
  - step_description: Cells were lysed with dapi stain to facilitate professor.
    conditions_or_variables:
    - adherent culture
    - with protease inhibitors
    data_collected: true
    duration_minutes: 642
    replicates: 4
data_analysis_methods:
- ImageJ densitometry
- Statistical analysis using GraphPad Prism (unpaired t-tests)
