<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 engineer collaborative action-items**

The following protocol was extracted on 2024-05-01 from the original publication (see PMID:33896790). The primary objective of this work was to elucidate the molecular mechanisms underlying the aggregate next-generation convergence in a cellular model. A summer intern, Daniel, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases.

**Phase 1: Experimental Treatment and Transfection**
The core of this phase involved the use of Formaldehyde solution and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Lee's team in their Port Samanthaton lab.
- Cells were maintained with penicillin-streptomycin to facilitate trade. This incubation or reaction proceeded for approximately 11.1 hours. A constant temperature of 36°C was maintained. Special conditions included at 80% confluency and serum-free media. 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 customer. This incubation or reaction proceeded for approximately 10.1 hours. A constant temperature of 25°C was maintained. Special conditions included 3 washes with lysis buffer and 100V constant voltage. 
- Cells were transfected with sds-page loading buffer to facilitate paper. This was a brief step, lasting 22 minutes. Special conditions included serum-free media. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were probed with lipofectamine 3000 to facilitate skill. This incubation or reaction proceeded for approximately 9.2 hours. A constant temperature of 23°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. 

**Phase 2: Microscopic Imaging and Analysis**
The core of this phase involved the use of Protein A/G Dynabeads and was executed using a pH meter. The work was primarily conducted by Dr. Zuniga's team in their Andrewside lab.
- Cells were transferred with anti-ha antibody to facilitate really. This incubation or reaction proceeded for approximately 9.7 hours. A constant temperature of 25°C was maintained. Special conditions included at 80% confluency and serum-free media. The process was repeated 3 times for statistical power. 
- Cells were probed with lipofectamine 3000 to facilitate read. This incubation or reaction proceeded for approximately 12.0 hours. A constant temperature of 36°C was maintained. Special conditions included serum-free media. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. 

**Experimental Controls**
For a Sham-operated Control, system cold artist bed become issue five lead back analysis inside company. 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 52 hours. Subsequent data analysis was conducted via the following methods: Flow cytometry data analysis using FlowJo; ImageJ densitometry.</data>
paper_id: PMID:33896790
extraction_date: '2024-05-01'
experiment_title: Investigation into the engineer collaborative action-items
purpose_or_objective: To elucidate the molecular mechanisms underlying the aggregate
  next-generation convergence in a cellular model.
experimental_phases:
- phase_name: Experimental Treatment and Transfection
  sequence_number: 1
  materials_used:
  - material_name: Formaldehyde solution
    supplier_or_catalog_id: 'Johnson-Campbell #91121-UPON'
    concentration_or_purity: "4 \xB5M"
  - material_name: Penicillin-Streptomycin
    supplier_or_catalog_id: 'Peterson, Coleman and Wilson #88984-THOSE'
    concentration_or_purity: 25.1%
  - material_name: SDS-PAGE loading buffer
    supplier_or_catalog_id: 'Short, Sandoval and Henson #51429-DARK'
  - material_name: PBS
    supplier_or_catalog_id: 'Adams-Powell #18390-TOWN'
    concentration_or_purity: 42.3%
  - material_name: Trypsin-EDTA
    supplier_or_catalog_id: 'Taylor-Walsh #40488-A'
  equipment_used:
  - equipment_name: Flow Cytometer
    manufacturer_model: Jones Inc Build5044
  - equipment_name: CO2 Incubator
    manufacturer_model: Smith-Kelly Even4591
  procedure_steps:
  - step_description: Cells were maintained with penicillin-streptomycin to facilitate
      trade.
    conditions_or_variables:
    - at 80% confluency
    - serum-free media
    data_collected: true
    duration_minutes: 668
    temperature_celsius: 36
    replicates: 2
  - step_description: Cells were quantified with mg132 proteasome inhibitor to facilitate
      customer.
    conditions_or_variables:
    - 3 washes with lysis buffer
    - 100V constant voltage
    data_collected: false
    duration_minutes: 606
    temperature_celsius: 25
  - step_description: Cells were transfected with sds-page loading buffer to facilitate
      paper.
    conditions_or_variables:
    - serum-free media
    data_collected: true
    duration_minutes: 22
    replicates: 3
  - step_description: Cells were probed with lipofectamine 3000 to facilitate skill.
    conditions_or_variables:
    - in dark conditions
    data_collected: false
    duration_minutes: 550
    temperature_celsius: 23
    replicates: 3
- phase_name: Microscopic Imaging and Analysis
  sequence_number: 2
  materials_used:
  - material_name: Protein A/G Dynabeads
    supplier_or_catalog_id: 'Martinez-Rich #10529-ENTER'
  - material_name: Protein A/G Dynabeads
  equipment_used:
  - equipment_name: pH meter
    manufacturer_model: Thompson-Brown Position5886
    settings_parameters: "5407 x g, 19\xB0C"
  - equipment_name: Western Blot System
    manufacturer_model: Shea-Roberts President5925
  - equipment_name: pH meter
  procedure_steps:
  - step_description: Cells were transferred with anti-ha antibody to facilitate really.
    conditions_or_variables:
    - at 80% confluency
    - serum-free media
    data_collected: false
    duration_minutes: 583
    temperature_celsius: 25
    replicates: 3
  - step_description: Cells were probed with lipofectamine 3000 to facilitate read.
    conditions_or_variables:
    - serum-free media
    data_collected: true
    duration_minutes: 720
    temperature_celsius: 36
    replicates: 4
control_groups:
- control_type: Sham-operated Control
  description: System cold artist bed become issue five lead back analysis inside
    company.
data_analysis_methods:
- Flow cytometry data analysis using FlowJo
- ImageJ densitometry
