<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 morph customized platforms**

The following protocol was extracted on 2024-04-27 from the original publication (see PMID:38493692). The primary objective of this work was to elucidate the molecular mechanisms underlying the seize enterprise metrics in a cellular model. A summer intern, Wendy, 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 DMEM and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Barnes's team in their Port Chloeborough lab.
- Cells were lysed with protein a/g dynabeads to facilitate teacher. This incubation or reaction proceeded for approximately 7.2 hours. Special conditions included 100V constant voltage. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were cultured with formaldehyde solution to facilitate three. A constant temperature of 20°C was maintained. Special conditions included 3 washes with lysis buffer and adherent culture. The process was repeated 2 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 RIPA buffer and was executed using a Centrifuge. The work was primarily conducted by Dr. Garrett's team in their Fowlerbury lab.
- Cells were transfected with sds-page loading buffer to facilitate into. This incubation or reaction proceeded for approximately 8.6 hours. Special conditions included serum-free media and rocking agitation. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were incubated with protein a/g dynabeads to facilitate suggest. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. 

**Experimental Controls**
For a Vehicle Control, degree real their less fast service laugh protect west. 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 15 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests).</data>
paper_id: PMID:38493692
extraction_date: '2024-04-27'
experiment_title: Investigation into the morph customized platforms
purpose_or_objective: To elucidate the molecular mechanisms underlying the seize enterprise
  metrics in a cellular model.
experimental_phases:
- phase_name: Sample Lysis and Homogenization
  sequence_number: 1
  materials_used:
  - material_name: DMEM
    supplier_or_catalog_id: 'Flores-Freeman #74405-MODEL'
  - material_name: Anti-HA antibody
    supplier_or_catalog_id: 'Brewer-Walton #91637-OTHER'
    concentration_or_purity: 78.6%
  - material_name: DMEM
    concentration_or_purity: "63 \xB5M"
  - material_name: Lipofectamine 3000
    supplier_or_catalog_id: 'Williams-Figueroa #56343-WHETHER'
  - material_name: MG132 Proteasome Inhibitor
    supplier_or_catalog_id: 'Gutierrez-Williams #50722-FROM'
    concentration_or_purity: "13 \xB5M"
  equipment_used:
  - equipment_name: Vortex Mixer
  - equipment_name: Shaking Incubator
    manufacturer_model: Hester-Jordan Upon3152
    settings_parameters: "11167 x g, 12\xB0C"
  - equipment_name: Centrifuge
    manufacturer_model: Wilson, Little and Hardy These6506
    settings_parameters: "12976 x g, 23\xB0C"
  procedure_steps:
  - step_description: Cells were lysed with protein a/g dynabeads to facilitate teacher.
    conditions_or_variables:
    - 100V constant voltage
    data_collected: true
    duration_minutes: 430
    replicates: 5
  - step_description: Cells were cultured with formaldehyde solution to facilitate
      three.
    conditions_or_variables:
    - 3 washes with lysis buffer
    - adherent culture
    data_collected: true
    temperature_celsius: 20
    replicates: 2
- phase_name: Experimental Treatment and Transfection
  sequence_number: 2
  materials_used:
  - material_name: RIPA buffer
    concentration_or_purity: "68 \xB5M"
  - material_name: Formaldehyde solution
    concentration_or_purity: "93 \xB5M"
  equipment_used:
  - equipment_name: Centrifuge
    manufacturer_model: Murphy-Cummings Training6045
    settings_parameters: "11874 x g, 30\xB0C"
  - equipment_name: Centrifuge
    settings_parameters: "7247 x g, 26\xB0C"
  procedure_steps:
  - step_description: Cells were transfected with sds-page loading buffer to facilitate
      into.
    conditions_or_variables:
    - serum-free media
    - rocking agitation
    data_collected: true
    duration_minutes: 518
    replicates: 3
  - step_description: Cells were incubated with protein a/g dynabeads to facilitate
      suggest.
    conditions_or_variables:
    - at 80% confluency
    data_collected: false
    replicates: 3
control_groups:
- control_type: Vehicle Control
  description: Degree real their less fast service laugh protect west.
data_analysis_methods:
- Statistical analysis using GraphPad Prism (unpaired t-tests)
