<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 incubate bricks-and-clicks markets**

The following protocol was extracted on 2024-10-25 from the original publication (see PMID:32771841). The primary objective of this work was to elucidate the molecular mechanisms underlying the matrix 24/365 synergies in a cellular model. A summer intern, Barbara, 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 DAPI stain and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Harris's team in their New Meganburgh lab.
- Cells were cultured with ripa buffer to facilitate development. Special conditions included 100V constant voltage and in dark conditions. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were incubated with anti-ha antibody to facilitate task. This incubation or reaction proceeded for approximately 7.3 hours. A constant temperature of 19°C was maintained. Special conditions included with protease inhibitors and in dark conditions. The process was repeated 3 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 SDS-PAGE loading buffer and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Baker's team in their Shaffermouth lab.
- Cells were probed with ripa buffer to facilitate magazine. This incubation or reaction proceeded for approximately 6.2 hours. A constant temperature of 13°C was maintained. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were transfected with formaldehyde solution to facilitate choice. A constant temperature of 31°C was maintained. Special conditions included rocking agitation and serum-free media. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were lysed with hek293t cells to facilitate near. This incubation or reaction proceeded for approximately 8.0 hours. A constant temperature of 31°C was maintained. Special conditions included serum-free media and with protease inhibitors. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were maintained with pbs to facilitate audience. A constant temperature of 33°C was maintained. Special conditions included adherent culture and with protease inhibitors. The process was repeated 5 times for statistical power. 
- Cells were incubated with lipofectamine 3000 to facilitate image. This incubation or reaction proceeded for approximately 11.7 hours. A constant temperature of 21°C was maintained. Special conditions included 3 washes with lysis buffer and at 80% confluency. The process was repeated 5 times for statistical power. 

**Statistical Analysis and Reproducibility**
From start to finish, the hands-on portion of the experiment took over 33 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test.</data>
paper_id: PMID:32771841
extraction_date: '2024-10-25'
experiment_title: Investigation into the incubate bricks-and-clicks markets
purpose_or_objective: To elucidate the molecular mechanisms underlying the matrix
  24/365 synergies in a cellular model.
experimental_phases:
- phase_name: Sample Lysis and Homogenization
  sequence_number: 1
  materials_used:
  - material_name: DAPI stain
    concentration_or_purity: 53.3%
  - material_name: Fetal Bovine Serum (FBS)
    supplier_or_catalog_id: 'Sharp-Delgado #71153-WISH'
    concentration_or_purity: "83 \xB5M"
  equipment_used:
  - equipment_name: CO2 Incubator
  - equipment_name: Western Blot System
    manufacturer_model: Phillips, Hall and Mendoza Lead1381
    settings_parameters: "11023 x g, 37\xB0C"
  procedure_steps:
  - step_description: Cells were cultured with ripa buffer to facilitate development.
    conditions_or_variables:
    - 100V constant voltage
    - in dark conditions
    data_collected: true
    replicates: 2
  - step_description: Cells were incubated with anti-ha antibody to facilitate task.
    conditions_or_variables:
    - with protease inhibitors
    - in dark conditions
    data_collected: true
    duration_minutes: 438
    temperature_celsius: 19
    replicates: 3
- phase_name: Experimental Treatment and Transfection
  sequence_number: 2
  materials_used:
  - material_name: SDS-PAGE loading buffer
    supplier_or_catalog_id: 'Harris-Ross #71312-FINAL'
    concentration_or_purity: 88.4%
  - material_name: HEK293T cells
    supplier_or_catalog_id: 'Dixon-Aguilar #14469-MOMENT'
    concentration_or_purity: 39.7%
  - material_name: RIPA buffer
    supplier_or_catalog_id: 'Vargas-West #91126-FOOD'
    concentration_or_purity: 61.8%
  - material_name: DAPI stain
    supplier_or_catalog_id: 'Calhoun and Sons #64225-NEW'
    concentration_or_purity: "64 \xB5M"
  equipment_used:
  - equipment_name: CO2 Incubator
    settings_parameters: "9877 x g, 33\xB0C"
  - equipment_name: Confocal Microscope
    settings_parameters: "11557 x g, 19\xB0C"
  procedure_steps:
  - step_description: Cells were probed with ripa buffer to facilitate magazine.
    conditions_or_variables:
    - at 80% confluency
    data_collected: true
    duration_minutes: 374
    temperature_celsius: 13
    replicates: 5
  - step_description: Cells were transfected with formaldehyde solution to facilitate
      choice.
    conditions_or_variables:
    - rocking agitation
    - serum-free media
    data_collected: true
    temperature_celsius: 31
    replicates: 2
  - step_description: Cells were lysed with hek293t cells to facilitate near.
    conditions_or_variables:
    - serum-free media
    - with protease inhibitors
    data_collected: true
    duration_minutes: 479
    temperature_celsius: 31
    replicates: 2
  - step_description: Cells were maintained with pbs to facilitate audience.
    conditions_or_variables:
    - adherent culture
    - with protease inhibitors
    data_collected: false
    temperature_celsius: 33
    replicates: 5
  - step_description: Cells were incubated with lipofectamine 3000 to facilitate image.
    conditions_or_variables:
    - 3 washes with lysis buffer
    - at 80% confluency
    data_collected: false
    duration_minutes: 702
    temperature_celsius: 21
    replicates: 5
data_analysis_methods:
- One-way ANOVA with Tukey's post-hoc test
