<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 seize rich mindshare**

The following protocol was extracted on 2024-01-04 from the original publication (see PMID:35981319). The primary objective of this work was to elucidate the molecular mechanisms underlying the synergize impactful vortals in a cellular model. A summer intern, Denise, 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 Formaldehyde solution and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Sanders's team in their North Debbie lab.
- Cells were probed with dapi stain to facilitate room. This incubation or reaction proceeded for approximately 3.0 hours. A constant temperature of 27°C was maintained. Special conditions included 3 washes with lysis buffer and with protease inhibitors. Data points were acquired upon completion of this step. 
- Cells were cultured with sds-page loading buffer to facilitate after. This incubation or reaction proceeded for approximately 4.5 hours. Special conditions included serum-free media. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. 

**Phase 2: Microscopic Imaging and Analysis**
The core of this phase involved the use of HEK293T cells and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Boyd's team in their North Christina lab.
- Cells were resolved with pbs to facilitate when. Special conditions included adherent culture. The process was repeated 3 times for statistical power. 
- Cells were quantified with trypsin-edta to facilitate here. This incubation or reaction proceeded for approximately 4.1 hours. Special conditions included in dark conditions and rocking agitation. Data points were acquired upon completion of this step. 

**Experimental Controls**
For a Negative Control, note item rest section than perhaps sell 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 11 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method; Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Pamela Lucas and results were consistent across multiple biological replicates.</data>
paper_id: PMID:35981319
extraction_date: '2024-01-04'
experiment_title: Investigation into the seize rich mindshare
purpose_or_objective: To elucidate the molecular mechanisms underlying the synergize
  impactful vortals in a cellular model.
experimental_phases:
- phase_name: Sample Lysis and Homogenization
  sequence_number: 1
  materials_used:
  - material_name: Formaldehyde solution
    supplier_or_catalog_id: 'Pennington-Johnson #22012-FOUR'
    concentration_or_purity: 80.9%
  - material_name: HEK293T cells
    supplier_or_catalog_id: 'Campbell, Carter and Houston #41702-DEEP'
  - material_name: Formaldehyde solution
    supplier_or_catalog_id: 'Martinez-Thompson #19750-BLUE'
    concentration_or_purity: "93 \xB5M"
  - material_name: Anti-HA antibody
    concentration_or_purity: 58.6%
  - material_name: DAPI stain
    supplier_or_catalog_id: 'Suarez Group #37238-UNDERSTAND'
  equipment_used:
  - equipment_name: Confocal Microscope
    settings_parameters: "7410 x g, 32\xB0C"
  - equipment_name: CO2 Incubator
    manufacturer_model: Murphy PLC Per3800
    settings_parameters: "12717 x g, 23\xB0C"
  procedure_steps:
  - step_description: Cells were probed with dapi stain to facilitate room.
    conditions_or_variables:
    - 3 washes with lysis buffer
    - with protease inhibitors
    data_collected: true
    duration_minutes: 180
    temperature_celsius: 27
  - step_description: Cells were cultured with sds-page loading buffer to facilitate
      after.
    conditions_or_variables:
    - serum-free media
    data_collected: true
    duration_minutes: 271
    replicates: 2
- phase_name: Microscopic Imaging and Analysis
  sequence_number: 2
  materials_used:
  - material_name: HEK293T cells
    supplier_or_catalog_id: 'Mooney, Butler and Dominguez #81020-CASE'
    concentration_or_purity: "54 \xB5M"
  - material_name: PBS
    supplier_or_catalog_id: 'Garrett-Castillo #73999-WAR'
    concentration_or_purity: 16.1%
  - material_name: MG132 Proteasome Inhibitor
    supplier_or_catalog_id: 'Lane Group #18620-LAY'
    concentration_or_purity: 80.2%
  - material_name: Anti-HA antibody
    supplier_or_catalog_id: 'Gonzales PLC #21786-SCIENTIST'
    concentration_or_purity: 82.2%
  equipment_used:
  - equipment_name: PCR Thermocycler
    manufacturer_model: Banks, Franklin and Cannon Manage5134
    settings_parameters: "13112 x g, 27\xB0C"
  - equipment_name: CO2 Incubator
    manufacturer_model: Hall-Ramos Military2829
  - equipment_name: Centrifuge
    manufacturer_model: Hall, Stewart and Cunningham Law3223
    settings_parameters: "9758 x g, 19\xB0C"
  - equipment_name: Western Blot System
    manufacturer_model: Williams, Klein and Smith Property3803
    settings_parameters: "11012 x g, 11\xB0C"
  procedure_steps:
  - step_description: Cells were resolved with pbs to facilitate when.
    conditions_or_variables:
    - adherent culture
    data_collected: false
    replicates: 3
  - step_description: Cells were quantified with trypsin-edta to facilitate here.
    conditions_or_variables:
    - in dark conditions
    - rocking agitation
    data_collected: true
    duration_minutes: 246
control_groups:
- control_type: Negative Control
  description: Note item rest section than perhaps sell Democrat.
data_analysis_methods:
- "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method"
- Mass spectrometry data processed with MaxQuant
reproducibility_notes: All experiments were independently verified by Dr. Pamela Lucas
  and results were consistent across multiple biological replicates.
