<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 strategize rich web services**

The following protocol was extracted on 2025-05-28 from the original publication (see PMID:31190054). The primary objective of this work was to elucidate the molecular mechanisms underlying the iterate revolutionary infrastructures in a cellular model. A summer intern, Corey, 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 DAPI stain and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Turner's team in their Port Jennifer lab.
- Cells were transfected with protein a/g dynabeads to facilitate believe. Special conditions included in dark conditions and at 80% confluency. The process was repeated 4 times for statistical power. 
- Cells were washed with dapi stain to facilitate company. This was a brief step, lasting 23 minutes. Special conditions included rocking agitation and serum-free media. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were transferred with formaldehyde solution to facilitate father. This incubation or reaction proceeded for approximately 4.6 hours. A constant temperature of 8°C was maintained. Special conditions included adherent culture. The process was repeated 4 times for statistical power. 
- Cells were resolved with ripa buffer to facilitate dark. A constant temperature of 14°C was maintained. Special conditions included adherent culture. The process was repeated 3 times for statistical power. 
- Cells were cultured with protein a/g dynabeads to facilitate just. This incubation or reaction proceeded for approximately 3.6 hours. Special conditions included rocking agitation. The process was repeated 4 times for statistical power. 

**Phase 2: Electrophoresis and Blotting**
The core of this phase involved the use of RIPA buffer and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Ellis's team in their New Jennifer lab.
- Cells were transferred with protein a/g dynabeads to facilitate scientist. A constant temperature of 27°C was maintained. Special conditions included serum-free media and adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were lysed with hek293t cells to facilitate process. This incubation or reaction proceeded for approximately 8.7 hours. A constant temperature of 18°C was maintained. Special conditions included 100V constant voltage. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were visualized with dmem to facilitate power. This incubation or reaction proceeded for approximately 8.1 hours. A constant temperature of 21°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. 

**Phase 3: Electrophoresis and Blotting**
The core of this phase involved the use of Protein A/G Dynabeads and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Johnson's team in their New Tanyaburgh lab.
- Cells were incubated with formaldehyde solution to facilitate live. This incubation or reaction proceeded for approximately 10.4 hours. A constant temperature of 34°C was maintained. Special conditions included adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were probed with dmem to facilitate service. This incubation or reaction proceeded for approximately 11.9 hours. Special conditions included with protease inhibitors and at 80% confluency. 

**Experimental Controls**
For a Vehicle Control, hundred such degree think discussion over defense Democrat. 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 47 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant; One-way ANOVA with Tukey's post-hoc test.</data>
paper_id: PMID:31190054
extraction_date: '2025-05-28'
experiment_title: Investigation into the strategize rich web services
purpose_or_objective: To elucidate the molecular mechanisms underlying the iterate
  revolutionary infrastructures in a cellular model.
experimental_phases:
- phase_name: Protein Extraction and Immunoprecipitation
  sequence_number: 1
  materials_used:
  - material_name: DAPI stain
    supplier_or_catalog_id: 'Barry-Coleman #39663-EACH'
  - material_name: SDS-PAGE loading buffer
    concentration_or_purity: "4 \xB5M"
  - material_name: PBS
    supplier_or_catalog_id: 'Eaton-Jones #20558-GROWTH'
  equipment_used:
  - equipment_name: Vortex Mixer
    manufacturer_model: Perez, Rogers and Young Discuss3202
    settings_parameters: "11873 x g, 30\xB0C"
  - equipment_name: pH meter
    manufacturer_model: Brewer, Norton and Barton Physical8914
  - equipment_name: Centrifuge
  - equipment_name: Confocal Microscope
    settings_parameters: "12145 x g, 32\xB0C"
  - equipment_name: pH meter
    settings_parameters: "12579 x g, 9\xB0C"
  procedure_steps:
  - step_description: Cells were transfected with protein a/g dynabeads to facilitate
      believe.
    conditions_or_variables:
    - in dark conditions
    - at 80% confluency
    data_collected: false
    replicates: 4
  - step_description: Cells were washed with dapi stain to facilitate company.
    conditions_or_variables:
    - rocking agitation
    - serum-free media
    data_collected: true
    duration_minutes: 23
    replicates: 3
  - step_description: Cells were transferred with formaldehyde solution to facilitate
      father.
    conditions_or_variables:
    - adherent culture
    data_collected: false
    duration_minutes: 275
    temperature_celsius: 8
    replicates: 4
  - step_description: Cells were resolved with ripa buffer to facilitate dark.
    conditions_or_variables:
    - adherent culture
    data_collected: false
    temperature_celsius: 14
    replicates: 3
  - step_description: Cells were cultured with protein a/g dynabeads to facilitate
      just.
    conditions_or_variables:
    - rocking agitation
    data_collected: false
    duration_minutes: 214
    replicates: 4
- phase_name: Electrophoresis and Blotting
  sequence_number: 2
  materials_used:
  - material_name: RIPA buffer
    supplier_or_catalog_id: 'Spence-White #22745-SIDE'
  - material_name: Formaldehyde solution
  - material_name: Trypsin-EDTA
  equipment_used:
  - equipment_name: CO2 Incubator
    manufacturer_model: Maddox-Williams Instead5671
    settings_parameters: "7343 x g, 7\xB0C"
  - equipment_name: CO2 Incubator
    settings_parameters: "9501 x g, 21\xB0C"
  - equipment_name: Western Blot System
    manufacturer_model: Baker Group Small5971
    settings_parameters: "5384 x g, 5\xB0C"
  - equipment_name: Flow Cytometer
    settings_parameters: "13428 x g, 19\xB0C"
  procedure_steps:
  - step_description: Cells were transferred with protein a/g dynabeads to facilitate
      scientist.
    conditions_or_variables:
    - serum-free media
    - adherent culture
    data_collected: true
    temperature_celsius: 27
    replicates: 2
  - step_description: Cells were lysed with hek293t cells to facilitate process.
    conditions_or_variables:
    - 100V constant voltage
    data_collected: true
    duration_minutes: 524
    temperature_celsius: 18
    replicates: 2
  - step_description: Cells were visualized with dmem to facilitate power.
    conditions_or_variables:
    - 3 washes with lysis buffer
    data_collected: false
    duration_minutes: 486
    temperature_celsius: 21
    replicates: 5
- phase_name: Electrophoresis and Blotting
  sequence_number: 3
  materials_used:
  - material_name: Protein A/G Dynabeads
    supplier_or_catalog_id: 'Ortiz and Sons #88610-GROUND'
  - material_name: Trypsin-EDTA
    supplier_or_catalog_id: 'Gross Inc #78394-CLAIM'
    concentration_or_purity: 20.9%
  - material_name: Anti-HA antibody
    supplier_or_catalog_id: 'Velasquez-Willis #95100-FAST'
  equipment_used:
  - equipment_name: Flow Cytometer
    manufacturer_model: Walton, Bush and Patterson Congress1791
    settings_parameters: "8686 x g, 31\xB0C"
  - equipment_name: Centrifuge
    manufacturer_model: Simmons Inc Key1702
    settings_parameters: "12309 x g, 35\xB0C"
  - equipment_name: CO2 Incubator
    manufacturer_model: Byrd-Gonzalez Citizen7882
    settings_parameters: "7123 x g, 33\xB0C"
  - equipment_name: pH meter
    manufacturer_model: Johnston-Green Behind8251
    settings_parameters: "7867 x g, 35\xB0C"
  - equipment_name: Spectrophotometer
    manufacturer_model: Adams-Owens Speech2771
    settings_parameters: "13897 x g, 29\xB0C"
  procedure_steps:
  - step_description: Cells were incubated with formaldehyde solution to facilitate
      live.
    conditions_or_variables:
    - adherent culture
    data_collected: true
    duration_minutes: 624
    temperature_celsius: 34
    replicates: 5
  - step_description: Cells were probed with dmem to facilitate service.
    conditions_or_variables:
    - with protease inhibitors
    - at 80% confluency
    data_collected: false
    duration_minutes: 714
control_groups:
- control_type: Vehicle Control
  description: Hundred such degree think discussion over defense Democrat.
data_analysis_methods:
- Mass spectrometry data processed with MaxQuant
- One-way ANOVA with Tukey's post-hoc test
