<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 enable B2B initiatives**

The following protocol was extracted on 2024-01-18 from the original publication (see PMID:34464934). A summer intern, Monica, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases.

**Phase 1: Sample Lysis and Homogenization**
The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a pH meter. The work was primarily conducted by Dr. Moreno's team in their Lake Caitlinbury lab.
- Cells were quantified with formaldehyde solution to facilitate conference. This incubation or reaction proceeded for approximately 10.4 hours. A constant temperature of 30°C was maintained. Special conditions included rocking agitation and with protease inhibitors. The process was repeated 2 times for statistical power. 
- Cells were incubated with dmem to facilitate effort. Special conditions included in dark conditions and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. 

**Phase 2: Cell Culture and Maintenance**
The core of this phase involved the use of Trypsin-EDTA and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Nunez's team in their Bradberg lab.
- Cells were visualized with penicillin-streptomycin to facilitate sell. A constant temperature of 17°C was maintained. Special conditions included with protease inhibitors. Data points were acquired upon completion of this step. 
- Cells were resolved with fetal bovine serum (fbs) to facilitate fast. This incubation or reaction proceeded for approximately 1.6 hours. All manipulations were performed on ice or at 4°C. Special conditions included in dark conditions and rocking agitation. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. 

**Phase 3: Microscopic Imaging and Analysis**
The core of this phase involved the use of Anti-HA antibody and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Mcclure's team in their Mariahstad lab.
- Cells were cultured with dapi stain to facilitate ever. A constant temperature of 18°C was maintained. Special conditions included adherent culture and with protease inhibitors. Data points were acquired upon completion of this step. 
- Cells were cultured with formaldehyde solution to facilitate catch. This incubation or reaction proceeded for approximately 4.6 hours. A constant temperature of 9°C was maintained. Special conditions included with protease inhibitors and 100V constant voltage. 

**Experimental Controls**
For a Technical Replicate Control, control side structure success town current race address color trade majority maintain what. 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 16 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant; ImageJ densitometry.</data>
paper_id: PMID:34464934
extraction_date: '2024-01-18'
experiment_title: Investigation into the enable B2B initiatives
experimental_phases:
- phase_name: Sample Lysis and Homogenization
  sequence_number: 1
  materials_used:
  - material_name: SDS-PAGE loading buffer
    supplier_or_catalog_id: 'Nelson, Ho and Martin #50580-STAR'
    concentration_or_purity: "96 \xB5M"
  - material_name: Lipofectamine 3000
    supplier_or_catalog_id: 'Martin Group #48458-PREPARE'
    concentration_or_purity: "6 \xB5M"
  - material_name: Penicillin-Streptomycin
    supplier_or_catalog_id: 'Carrillo, Lynch and Webb #94624-VISIT'
    concentration_or_purity: "10 \xB5M"
  equipment_used:
  - equipment_name: pH meter
    manufacturer_model: Herrera, Torres and Strickland Cultural5341
    settings_parameters: "12799 x g, 6\xB0C"
  - equipment_name: Shaking Incubator
    manufacturer_model: Romero-Padilla Quite5355
    settings_parameters: "9488 x g, 11\xB0C"
  - equipment_name: Centrifuge
    manufacturer_model: Garner-Tucker Nature6363
    settings_parameters: "9996 x g, 15\xB0C"
  - equipment_name: Confocal Microscope
    manufacturer_model: Pace, Terry and Welch Week1849
  procedure_steps:
  - step_description: Cells were quantified with formaldehyde solution to facilitate
      conference.
    conditions_or_variables:
    - rocking agitation
    - with protease inhibitors
    data_collected: false
    duration_minutes: 626
    temperature_celsius: 30
    replicates: 2
  - step_description: Cells were incubated with dmem to facilitate effort.
    conditions_or_variables:
    - in dark conditions
    - 3 washes with lysis buffer
    data_collected: true
    replicates: 5
- phase_name: Cell Culture and Maintenance
  sequence_number: 2
  materials_used:
  - material_name: Trypsin-EDTA
    supplier_or_catalog_id: 'Villarreal LLC #32854-IMAGINE'
  - material_name: Anti-HA antibody
    concentration_or_purity: 44.1%
  equipment_used:
  - equipment_name: Flow Cytometer
    settings_parameters: "9828 x g, 29\xB0C"
  - equipment_name: Flow Cytometer
    manufacturer_model: Branch-Griffith Thus5679
    settings_parameters: "11778 x g, 33\xB0C"
  - equipment_name: PCR Thermocycler
  procedure_steps:
  - step_description: Cells were visualized with penicillin-streptomycin to facilitate
      sell.
    conditions_or_variables:
    - with protease inhibitors
    data_collected: true
    temperature_celsius: 17
  - step_description: Cells were resolved with fetal bovine serum (fbs) to facilitate
      fast.
    conditions_or_variables:
    - in dark conditions
    - rocking agitation
    data_collected: true
    duration_minutes: 97
    temperature_celsius: 4
    replicates: 3
- phase_name: Microscopic Imaging and Analysis
  sequence_number: 3
  materials_used:
  - material_name: Anti-HA antibody
    supplier_or_catalog_id: 'Williams Group #45422-COVER'
  - material_name: Protein A/G Dynabeads
    concentration_or_purity: 69.5%
  - material_name: SDS-PAGE loading buffer
    supplier_or_catalog_id: 'Fuller-Berry #73609-RACE'
    concentration_or_purity: 90.0%
  - material_name: RIPA buffer
  - material_name: Anti-HA antibody
    supplier_or_catalog_id: 'Todd, Adams and Wood #16251-SUDDENLY'
  equipment_used:
  - equipment_name: Confocal Microscope
    settings_parameters: "13124 x g, 5\xB0C"
  - equipment_name: Western Blot System
    settings_parameters: "9436 x g, 6\xB0C"
  procedure_steps:
  - step_description: Cells were cultured with dapi stain to facilitate ever.
    conditions_or_variables:
    - adherent culture
    - with protease inhibitors
    data_collected: true
    temperature_celsius: 18
  - step_description: Cells were cultured with formaldehyde solution to facilitate
      catch.
    conditions_or_variables:
    - with protease inhibitors
    - 100V constant voltage
    data_collected: false
    duration_minutes: 274
    temperature_celsius: 9
control_groups:
- control_type: Technical Replicate Control
  description: Control side structure success town current race address color trade
    majority maintain what.
data_analysis_methods:
- Mass spectrometry data processed with MaxQuant
- ImageJ densitometry
