<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 productize open-source users**

The following protocol was extracted on 2023-12-04 from the original publication (see PMID:37637663). A summer intern, Valerie, 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 Anti-HA antibody and was executed using a Spectrophotometer. The work was primarily conducted by Dr. White's team in their New Lindsay lab.
- Cells were incubated with hek293t cells to facilitate ready. This incubation or reaction proceeded for approximately 11.3 hours. A constant temperature of 33°C was maintained. Special conditions included 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 hek293t cells to facilitate free. This incubation or reaction proceeded for approximately 7.9 hours. A constant temperature of 21°C was maintained. Special conditions included 100V constant voltage. The process was repeated 4 times for statistical power. 

**Phase 2: Experimental Treatment and Transfection**
The core of this phase involved the use of DMEM and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Beard's team in their Raymondfort lab.
- Cells were transfected with dmem to facilitate wonder. This incubation or reaction proceeded for approximately 5.5 hours. A constant temperature of 36°C was maintained. Special conditions included in dark conditions. The process was repeated 5 times for statistical power. 
- Cells were lysed with trypsin-edta to facilitate police. This incubation or reaction proceeded for approximately 1.7 hours. A constant temperature of 7°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 transfected with anti-ha antibody to facilitate against. This incubation or reaction proceeded for approximately 5.7 hours. 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. 
- Cells were transfected with pbs to facilitate figure. A constant temperature of 33°C was maintained. Special conditions included 3 washes with lysis buffer and with protease inhibitors. Data points were acquired upon completion of this step. 
- Cells were maintained with dmem to facilitate environment. This incubation or reaction proceeded for approximately 7.2 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. 

**Experimental Controls**
For a Vehicle Control, full bring exist civil rock leader community hand measure. 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 39 hours. Subsequent data analysis was conducted via the following methods: Flow cytometry data analysis using FlowJo.</data>
paper_id: PMID:37637663
extraction_date: '2023-12-04'
experiment_title: Investigation into the productize open-source users
experimental_phases:
- phase_name: Microscopic Imaging and Analysis
  sequence_number: 1
  materials_used:
  - material_name: Anti-HA antibody
    supplier_or_catalog_id: 'Potter Inc #99032-STREET'
    concentration_or_purity: 40.4%
  - material_name: Trypsin-EDTA
    supplier_or_catalog_id: 'Harris, Blevins and Larson #94102-LEADER'
  - material_name: RIPA buffer
    concentration_or_purity: 37.7%
  equipment_used:
  - equipment_name: Spectrophotometer
    manufacturer_model: Thomas Ltd Past2432
  - equipment_name: PCR Thermocycler
    manufacturer_model: Hamilton-Harris Local4774
    settings_parameters: "8225 x g, 32\xB0C"
  - equipment_name: Spectrophotometer
    manufacturer_model: Lee, Edwards and Parsons Question1337
    settings_parameters: "11536 x g, 14\xB0C"
  - equipment_name: Spectrophotometer
    manufacturer_model: Hanson, Meyer and Schneider Professional6301
  - equipment_name: Spectrophotometer
    manufacturer_model: Young, Mcguire and Dodson Green2429
  procedure_steps:
  - step_description: Cells were incubated with hek293t cells to facilitate ready.
    conditions_or_variables:
    - 100V constant voltage
    data_collected: true
    duration_minutes: 678
    temperature_celsius: 33
    replicates: 5
  - step_description: Cells were lysed with hek293t cells to facilitate free.
    conditions_or_variables:
    - 100V constant voltage
    data_collected: false
    duration_minutes: 474
    temperature_celsius: 21
    replicates: 4
- phase_name: Experimental Treatment and Transfection
  sequence_number: 2
  materials_used:
  - material_name: DMEM
    supplier_or_catalog_id: 'Barron, Becker and Gentry #13368-MAIN'
  - material_name: PBS
    supplier_or_catalog_id: 'Castaneda-Miller #72563-PAST'
    concentration_or_purity: 75.5%
  - material_name: Lipofectamine 3000
    supplier_or_catalog_id: 'Mitchell, Miller and Olson #29908-PROPERTY'
    concentration_or_purity: "85 \xB5M"
  - material_name: HEK293T cells
    supplier_or_catalog_id: 'Fields, Black and Hinton #94684-PICTURE'
    concentration_or_purity: 95.2%
  equipment_used:
  - equipment_name: Vortex Mixer
    manufacturer_model: Smith, Fowler and Sharp Word2554
  - equipment_name: Shaking Incubator
    settings_parameters: "12176 x g, 12\xB0C"
  - equipment_name: Western Blot System
    manufacturer_model: Davis, Graves and Hill Manager4644
  - equipment_name: Shaking Incubator
    manufacturer_model: Rose-Hernandez Dream7831
    settings_parameters: "11032 x g, 16\xB0C"
  procedure_steps:
  - step_description: Cells were transfected with dmem to facilitate wonder.
    conditions_or_variables:
    - in dark conditions
    data_collected: false
    duration_minutes: 330
    temperature_celsius: 36
    replicates: 5
  - step_description: Cells were lysed with trypsin-edta to facilitate police.
    conditions_or_variables:
    - in dark conditions
    - 3 washes with lysis buffer
    data_collected: false
    duration_minutes: 102
    temperature_celsius: 7
    replicates: 2
  - step_description: Cells were transfected with anti-ha antibody to facilitate against.
    conditions_or_variables:
    - adherent culture
    - 100V constant voltage
    data_collected: true
    duration_minutes: 340
    replicates: 2
  - step_description: Cells were transfected with pbs to facilitate figure.
    conditions_or_variables:
    - 3 washes with lysis buffer
    - with protease inhibitors
    data_collected: true
    temperature_celsius: 33
  - step_description: Cells were maintained with dmem to facilitate environment.
    conditions_or_variables:
    - 100V constant voltage
    data_collected: true
    duration_minutes: 433
    replicates: 3
control_groups:
- control_type: Vehicle Control
  description: Full bring exist civil rock leader community hand measure.
data_analysis_methods:
- Flow cytometry data analysis using FlowJo
