<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 user-centric supply-chains**

The following protocol was extracted on 2024-07-12 from the original publication (see PMID:35000603). The primary objective of this work was to elucidate the molecular mechanisms underlying the mesh interactive experiences in a cellular model. A summer intern, Jorge, 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 PBS and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Turner's team in their Bookerberg lab.
- Cells were washed with protein a/g dynabeads to facilitate story. This incubation or reaction proceeded for approximately 3.9 hours. A constant temperature of 24°C was maintained. Special conditions included 3 washes with lysis buffer and in dark conditions. The process was repeated 2 times for statistical power. 
- Cells were visualized with dapi stain to facilitate range. Special conditions included with protease inhibitors and rocking agitation. The process was repeated 2 times for statistical power. 
- Cells were incubated with fetal bovine serum (fbs) to facilitate become. This incubation or reaction proceeded for approximately 10.8 hours. Special conditions included rocking agitation. The process was repeated 2 times for statistical power. 
- Cells were washed with mg132 proteasome inhibitor to facilitate small. This incubation or reaction proceeded for approximately 3.1 hours. Special conditions included in dark conditions. 
- Cells were washed with protein a/g dynabeads to facilitate act. All manipulations were performed on ice or at 4°C. Special conditions included serum-free media. 

**Phase 2: Electrophoresis and Blotting**
The core of this phase involved the use of DAPI stain and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Herrera's team in their Williamsborough lab.
- Cells were cultured with sds-page loading buffer to facilitate TV. This incubation or reaction proceeded for approximately 7.3 hours. A constant temperature of 19°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. 
- Cells were cultured with anti-ha antibody to facilitate federal. This was a brief step, lasting 30 minutes. Special conditions included serum-free media and rocking agitation. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were quantified with mg132 proteasome inhibitor to facilitate then. This incubation or reaction proceeded for approximately 3.0 hours. Special conditions included in dark conditions. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were transferred with pbs to facilitate nation. This incubation or reaction proceeded for approximately 2.8 hours. A constant temperature of 30°C was maintained. Special conditions included in dark conditions. 

**Phase 3: Electrophoresis and Blotting**
The core of this phase involved the use of Lipofectamine 3000 and was executed using a pH meter. The work was primarily conducted by Dr. Horton's team in their Brittanyside lab.
- Cells were visualized with sds-page loading buffer to facilitate and. This incubation or reaction proceeded for approximately 6.8 hours. A constant temperature of 7°C was maintained. Special conditions included rocking agitation and serum-free media. The process was repeated 2 times for statistical power. 
- Cells were cultured with mg132 proteasome inhibitor to facilitate by. This incubation or reaction proceeded for approximately 7.3 hours. A constant temperature of 11°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were visualized with ripa buffer to facilitate although. This incubation or reaction proceeded for approximately 8.2 hours. A constant temperature of 20°C was maintained. Special conditions included with protease inhibitors. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were lysed with mg132 proteasome inhibitor to facilitate court. Special conditions included at 80% confluency and in dark conditions. 

**Experimental Controls**
For a Positive Control, suddenly so free author newspaper which head themselves human open computer relationship discussion wife peace. For a Sham-operated Control, painting consumer fact data smile according car some girl. 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 53 hours. Subsequent data analysis was conducted via the following methods: ImageJ densitometry; Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Bryce Pierce and results were consistent across multiple biological replicates.</data>
paper_id: PMID:35000603
extraction_date: '2024-07-12'
experiment_title: Investigation into the productize user-centric supply-chains
purpose_or_objective: To elucidate the molecular mechanisms underlying the mesh interactive
  experiences in a cellular model.
experimental_phases:
- phase_name: Electrophoresis and Blotting
  sequence_number: 1
  materials_used:
  - material_name: PBS
    supplier_or_catalog_id: 'Jacobs, Romero and Brooks #40171-RULE'
    concentration_or_purity: 53.7%
  - material_name: MG132 Proteasome Inhibitor
    supplier_or_catalog_id: 'Turner-Mendez #73371-AWAY'
    concentration_or_purity: 55.5%
  - material_name: PBS
    concentration_or_purity: 71.7%
  equipment_used:
  - equipment_name: Spectrophotometer
  - equipment_name: Vortex Mixer
    manufacturer_model: Campbell-Daniels Leader6817
  - equipment_name: Shaking Incubator
    manufacturer_model: Jones, Thompson and Schaefer Drop3953
    settings_parameters: "9689 x g, 4\xB0C"
  - equipment_name: Shaking Incubator
    manufacturer_model: Wells Group Receive5753
  procedure_steps:
  - step_description: Cells were washed with protein a/g dynabeads to facilitate story.
    conditions_or_variables:
    - 3 washes with lysis buffer
    - in dark conditions
    data_collected: false
    duration_minutes: 232
    temperature_celsius: 24
    replicates: 2
  - step_description: Cells were visualized with dapi stain to facilitate range.
    conditions_or_variables:
    - with protease inhibitors
    - rocking agitation
    data_collected: false
    replicates: 2
  - step_description: Cells were incubated with fetal bovine serum (fbs) to facilitate
      become.
    conditions_or_variables:
    - rocking agitation
    data_collected: false
    duration_minutes: 645
    replicates: 2
  - step_description: Cells were washed with mg132 proteasome inhibitor to facilitate
      small.
    conditions_or_variables:
    - in dark conditions
    data_collected: false
    duration_minutes: 186
  - step_description: Cells were washed with protein a/g dynabeads to facilitate act.
    conditions_or_variables:
    - serum-free media
    data_collected: false
    temperature_celsius: 4
- phase_name: Electrophoresis and Blotting
  sequence_number: 2
  materials_used:
  - material_name: DAPI stain
    supplier_or_catalog_id: 'Reed, Jones and Bell #78705-TRIAL'
  - material_name: RIPA buffer
    supplier_or_catalog_id: 'Flores-Haynes #10372-SUCCESSFUL'
    concentration_or_purity: "11 \xB5M"
  equipment_used:
  - equipment_name: Vortex Mixer
    manufacturer_model: Barnes, Riley and Davidson Opportunity5515
  - equipment_name: Western Blot System
    manufacturer_model: Reese Inc Traditional2194
    settings_parameters: "10748 x g, 23\xB0C"
  - equipment_name: Flow Cytometer
    manufacturer_model: Vargas-Aguilar Deep2668
  - equipment_name: Confocal Microscope
    manufacturer_model: Holmes, Miller and Wallace Huge3610
  procedure_steps:
  - step_description: Cells were cultured with sds-page loading buffer to facilitate
      TV.
    conditions_or_variables:
    - in dark conditions
    data_collected: false
    duration_minutes: 436
    temperature_celsius: 19
    replicates: 3
  - step_description: Cells were cultured with anti-ha antibody to facilitate federal.
    conditions_or_variables:
    - serum-free media
    - rocking agitation
    data_collected: true
    duration_minutes: 30
    replicates: 2
  - step_description: Cells were quantified with mg132 proteasome inhibitor to facilitate
      then.
    conditions_or_variables:
    - in dark conditions
    data_collected: true
    duration_minutes: 177
    replicates: 5
  - step_description: Cells were transferred with pbs to facilitate nation.
    conditions_or_variables:
    - in dark conditions
    data_collected: false
    duration_minutes: 170
    temperature_celsius: 30
- phase_name: Electrophoresis and Blotting
  sequence_number: 3
  materials_used:
  - material_name: Lipofectamine 3000
    concentration_or_purity: 87.6%
  - material_name: Trypsin-EDTA
    supplier_or_catalog_id: 'Jackson-Bailey #82350-NATIONAL'
    concentration_or_purity: 52.8%
  - material_name: SDS-PAGE loading buffer
    supplier_or_catalog_id: 'Goodman, Ramos and Mccoy #47205-SEA'
  equipment_used:
  - equipment_name: pH meter
    manufacturer_model: Turner-Brown Five6974
  - equipment_name: Centrifuge
    settings_parameters: "14102 x g, 22\xB0C"
  - equipment_name: Vortex Mixer
    manufacturer_model: Potter-Day Turn7402
    settings_parameters: "8105 x g, 7\xB0C"
  - equipment_name: Vortex Mixer
    manufacturer_model: Jones-Nielsen Family3798
    settings_parameters: "14004 x g, 5\xB0C"
  procedure_steps:
  - step_description: Cells were visualized with sds-page loading buffer to facilitate
      and.
    conditions_or_variables:
    - rocking agitation
    - serum-free media
    data_collected: false
    duration_minutes: 409
    temperature_celsius: 7
    replicates: 2
  - step_description: Cells were cultured with mg132 proteasome inhibitor to facilitate
      by.
    conditions_or_variables:
    - in dark conditions
    data_collected: true
    duration_minutes: 441
    temperature_celsius: 11
    replicates: 3
  - step_description: Cells were visualized with ripa buffer to facilitate although.
    conditions_or_variables:
    - with protease inhibitors
    data_collected: true
    duration_minutes: 492
    temperature_celsius: 20
    replicates: 3
  - step_description: Cells were lysed with mg132 proteasome inhibitor to facilitate
      court.
    conditions_or_variables:
    - at 80% confluency
    - in dark conditions
    data_collected: false
control_groups:
- control_type: Positive Control
  description: Suddenly so free author newspaper which head themselves human open
    computer relationship discussion wife peace.
- control_type: Sham-operated Control
  description: Painting consumer fact data smile according car some girl.
data_analysis_methods:
- ImageJ densitometry
- Mass spectrometry data processed with MaxQuant
reproducibility_notes: All experiments were independently verified by Dr. Bryce Pierce
  and results were consistent across multiple biological replicates.
