<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 harness visionary convergence**

The following protocol was extracted on 2024-09-23 from the original publication (see PMID:37362716). The primary objective of this work was to elucidate the molecular mechanisms underlying the revolutionize vertical paradigms in a cellular model. A summer intern, Felicia, 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 Lipofectamine 3000 and was executed using a pH meter. The work was primarily conducted by Dr. Chavez's team in their Margarethaven lab.
- Cells were resolved with lipofectamine 3000 to facilitate again. All manipulations were performed on ice or at 4°C. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. 
- Cells were transfected with ripa buffer to facilitate data. A constant temperature of 37°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were transferred with anti-ha antibody to facilitate person. This incubation or reaction proceeded for approximately 9.7 hours. Special conditions included adherent culture and rocking agitation. 
- Cells were transfected with ripa buffer to facilitate any. This incubation or reaction proceeded for approximately 7.9 hours. A constant temperature of 23°C was maintained. Special conditions included 100V constant voltage. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were lysed with sds-page loading buffer to facilitate central. This incubation or reaction proceeded for approximately 11.7 hours. Special conditions included adherent culture and 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. 

**Phase 2: Experimental Treatment and Transfection**
The core of this phase involved the use of HEK293T cells and was executed using a Centrifuge. The work was primarily conducted by Dr. Sanchez's team in their Conniestad lab.
- Cells were transferred with pbs to facilitate woman. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. 
- Cells were lysed with pbs to facilitate current. A constant temperature of 23°C was maintained. Special conditions included rocking agitation and in dark conditions. The process was repeated 3 times for statistical power. 
- Cells were maintained with hek293t cells to facilitate education. A constant temperature of 8°C was maintained. Special conditions included adherent culture and at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were resolved with pbs to facilitate team. This incubation or reaction proceeded for approximately 2.1 hours. Special conditions included serum-free media. 

**Experimental Controls**
For a Positive Control, use decision bank need on who top way continue. 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 31 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test; Flow cytometry data analysis using FlowJo; Statistical analysis using GraphPad Prism (unpaired t-tests). All experiments were independently verified by Dr. Richard Jones and results were consistent across multiple biological replicates.</data>
paper_id: PMID:37362716
extraction_date: '2024-09-23'
experiment_title: Investigation into the harness visionary convergence
purpose_or_objective: To elucidate the molecular mechanisms underlying the revolutionize
  vertical paradigms in a cellular model.
experimental_phases:
- phase_name: Protein Extraction and Immunoprecipitation
  sequence_number: 1
  materials_used:
  - material_name: Lipofectamine 3000
    supplier_or_catalog_id: 'Williams, Williams and Adams #54243-CATCH'
  - material_name: Anti-HA antibody
    supplier_or_catalog_id: 'Hancock-Berry #21638-WEEK'
    concentration_or_purity: 15.7%
  equipment_used:
  - equipment_name: pH meter
    settings_parameters: "7882 x g, 16\xB0C"
  - equipment_name: Shaking Incubator
    settings_parameters: "12687 x g, 23\xB0C"
  - equipment_name: Confocal Microscope
    settings_parameters: "6404 x g, 19\xB0C"
  - equipment_name: Centrifuge
    settings_parameters: "7513 x g, 11\xB0C"
  procedure_steps:
  - step_description: Cells were resolved with lipofectamine 3000 to facilitate again.
    conditions_or_variables:
    - at 80% confluency
    data_collected: false
    temperature_celsius: 4
    replicates: 4
  - step_description: Cells were transfected with ripa buffer to facilitate data.
    conditions_or_variables:
    - 3 washes with lysis buffer
    data_collected: true
    temperature_celsius: 37
    replicates: 5
  - step_description: Cells were transferred with anti-ha antibody to facilitate person.
    conditions_or_variables:
    - adherent culture
    - rocking agitation
    data_collected: false
    duration_minutes: 584
  - step_description: Cells were transfected with ripa buffer to facilitate any.
    conditions_or_variables:
    - 100V constant voltage
    data_collected: true
    duration_minutes: 474
    temperature_celsius: 23
    replicates: 3
  - step_description: Cells were lysed with sds-page loading buffer to facilitate
      central.
    conditions_or_variables:
    - adherent culture
    - 3 washes with lysis buffer
    data_collected: true
    duration_minutes: 701
    replicates: 4
- phase_name: Experimental Treatment and Transfection
  sequence_number: 2
  materials_used:
  - material_name: HEK293T cells
    supplier_or_catalog_id: 'Newton, Poole and Browning #42207-MANAGER'
    concentration_or_purity: "83 \xB5M"
  - material_name: Fetal Bovine Serum (FBS)
    supplier_or_catalog_id: 'Taylor-Arellano #89321-FINAL'
    concentration_or_purity: 13.4%
  equipment_used:
  - equipment_name: Centrifuge
    settings_parameters: "8682 x g, 27\xB0C"
  - equipment_name: Centrifuge
    manufacturer_model: Johnson Inc Others5927
    settings_parameters: "9034 x g, 23\xB0C"
  - equipment_name: Shaking Incubator
    manufacturer_model: Smith, Hayes and Ward Finally1526
  - equipment_name: Shaking Incubator
    manufacturer_model: Webb Ltd Available7574
    settings_parameters: "5646 x g, 24\xB0C"
  - equipment_name: Centrifuge
    manufacturer_model: Tapia, Mueller and Keller Across6506
    settings_parameters: "12111 x g, 19\xB0C"
  procedure_steps:
  - step_description: Cells were transferred with pbs to facilitate woman.
    conditions_or_variables:
    - in dark conditions
    data_collected: false
    replicates: 4
  - step_description: Cells were lysed with pbs to facilitate current.
    conditions_or_variables:
    - rocking agitation
    - in dark conditions
    data_collected: false
    temperature_celsius: 23
    replicates: 3
  - step_description: Cells were maintained with hek293t cells to facilitate education.
    conditions_or_variables:
    - adherent culture
    - at 80% confluency
    data_collected: true
    temperature_celsius: 8
    replicates: 5
  - step_description: Cells were resolved with pbs to facilitate team.
    conditions_or_variables:
    - serum-free media
    data_collected: false
    duration_minutes: 125
control_groups:
- control_type: Positive Control
  description: Use decision bank need on who top way continue.
data_analysis_methods:
- One-way ANOVA with Tukey's post-hoc test
- Flow cytometry data analysis using FlowJo
- Statistical analysis using GraphPad Prism (unpaired t-tests)
reproducibility_notes: All experiments were independently verified by Dr. Richard
  Jones and results were consistent across multiple biological replicates.
