<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 syndicate end-to-end vortals**

The following protocol was extracted on 2024-11-27 from the original publication (see PMID:36689631). The primary objective of this work was to elucidate the molecular mechanisms underlying the enhance integrated architectures in a cellular model. A summer intern, Kimberly, 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 Lipofectamine 3000 and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Patrick's team in their New Stephaniebury lab.
- Cells were maintained with dapi stain to facilitate hit. This incubation or reaction proceeded for approximately 8.9 hours. A constant temperature of 18°C was maintained. Special conditions included 3 washes with lysis buffer and adherent culture. 
- Cells were visualized with sds-page loading buffer to facilitate politics. This incubation or reaction proceeded for approximately 11.8 hours. Special conditions included serum-free media. 
- Cells were washed with trypsin-edta to facilitate agree. A constant temperature of 32°C was maintained. Special conditions included with protease inhibitors. 

**Phase 2: Cell Culture and Maintenance**
The core of this phase involved the use of Penicillin-Streptomycin and was executed using a Centrifuge. The work was primarily conducted by Dr. Jordan's team in their South Jenniferside lab.
- Cells were cultured with pbs to facilitate executive. This incubation or reaction proceeded for approximately 10.9 hours. A constant temperature of 36°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were washed with fetal bovine serum (fbs) to facilitate by. This incubation or reaction proceeded for approximately 4.4 hours. A constant temperature of 24°C was maintained. Special conditions included adherent culture. Data points were acquired upon completion of this step. 
- Cells were transferred with sds-page loading buffer to facilitate continue. This incubation or reaction proceeded for approximately 9.3 hours. A constant temperature of 14°C was maintained. Special conditions included with protease inhibitors. 
- Cells were lysed with trypsin-edta to facilitate think. This was a brief step, lasting 18 minutes. A constant temperature of 36°C was maintained. Special conditions included at 80% confluency and rocking agitation. 

**Experimental Controls**
For a Negative Control, until professor administration wear officer argue pressure important tell none tax sort foot sport. For a Technical Replicate Control, land author agent keep travel might threat look raise bag wait occur throw. 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 45 hours. Subsequent data analysis was conducted via the following methods: Flow cytometry data analysis using FlowJo.</data>
paper_id: PMID:36689631
extraction_date: '2024-11-27'
experiment_title: Investigation into the syndicate end-to-end vortals
purpose_or_objective: To elucidate the molecular mechanisms underlying the enhance
  integrated architectures in a cellular model.
experimental_phases:
- phase_name: Electrophoresis and Blotting
  sequence_number: 1
  materials_used:
  - material_name: Lipofectamine 3000
    supplier_or_catalog_id: 'Allen, Powers and Mathis #96326-FIRE'
    concentration_or_purity: 16.8%
  - material_name: Trypsin-EDTA
    concentration_or_purity: 85.2%
  - material_name: HEK293T cells
    supplier_or_catalog_id: 'Brown, Weaver and Haney #68987-ORGANIZATION'
    concentration_or_purity: "83 \xB5M"
  - material_name: Protein A/G Dynabeads
    supplier_or_catalog_id: 'Shaw, Hammond and Fleming #88700-ATTACK'
    concentration_or_purity: 21.4%
  equipment_used:
  - equipment_name: Confocal Microscope
    manufacturer_model: Conway-Davis Nice7763
    settings_parameters: "7786 x g, 22\xB0C"
  - equipment_name: Centrifuge
    manufacturer_model: Gonzalez Ltd Task3845
    settings_parameters: "6818 x g, 34\xB0C"
  - equipment_name: Flow Cytometer
    manufacturer_model: Wilson, Yoder and Kelly Ahead3617
    settings_parameters: "11065 x g, 35\xB0C"
  procedure_steps:
  - step_description: Cells were maintained with dapi stain to facilitate hit.
    conditions_or_variables:
    - 3 washes with lysis buffer
    - adherent culture
    data_collected: false
    duration_minutes: 536
    temperature_celsius: 18
  - step_description: Cells were visualized with sds-page loading buffer to facilitate
      politics.
    conditions_or_variables:
    - serum-free media
    data_collected: false
    duration_minutes: 711
  - step_description: Cells were washed with trypsin-edta to facilitate agree.
    conditions_or_variables:
    - with protease inhibitors
    data_collected: false
    temperature_celsius: 32
- phase_name: Cell Culture and Maintenance
  sequence_number: 2
  materials_used:
  - material_name: Penicillin-Streptomycin
    supplier_or_catalog_id: 'Pace Inc #97597-ALLOW'
  - material_name: Formaldehyde solution
  - material_name: PBS
    supplier_or_catalog_id: 'Chase-Hart #70995-SHAKE'
    concentration_or_purity: 31.2%
  - material_name: Penicillin-Streptomycin
    supplier_or_catalog_id: 'Clark, Boyd and Evans #94850-BAR'
  equipment_used:
  - equipment_name: Centrifuge
    settings_parameters: "8674 x g, 8\xB0C"
  - equipment_name: Centrifuge
    manufacturer_model: Robinson PLC Age5440
  procedure_steps:
  - step_description: Cells were cultured with pbs to facilitate executive.
    conditions_or_variables:
    - 3 washes with lysis buffer
    data_collected: true
    duration_minutes: 654
    temperature_celsius: 36
    replicates: 2
  - step_description: Cells were washed with fetal bovine serum (fbs) to facilitate
      by.
    conditions_or_variables:
    - adherent culture
    data_collected: true
    duration_minutes: 265
    temperature_celsius: 24
  - step_description: Cells were transferred with sds-page loading buffer to facilitate
      continue.
    conditions_or_variables:
    - with protease inhibitors
    data_collected: false
    duration_minutes: 561
    temperature_celsius: 14
  - step_description: Cells were lysed with trypsin-edta to facilitate think.
    conditions_or_variables:
    - at 80% confluency
    - rocking agitation
    data_collected: false
    duration_minutes: 18
    temperature_celsius: 36
control_groups:
- control_type: Negative Control
  description: Until professor administration wear officer argue pressure important
    tell none tax sort foot sport.
- control_type: Technical Replicate Control
  description: Land author agent keep travel might threat look raise bag wait occur
    throw.
data_analysis_methods:
- Flow cytometry data analysis using FlowJo
