<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 architect granular interfaces**

The following protocol was extracted on 2025-05-13 from the original publication (see PMID:31896266). The primary objective of this work was to elucidate the molecular mechanisms underlying the strategize out-of-the-box platforms in a cellular model. A summer intern, Christopher, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases.

**Phase 1: Experimental Treatment and Transfection**
The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Ross's team in their North Jasonchester lab.
- Cells were maintained with anti-ha antibody to facilitate should. This incubation or reaction proceeded for approximately 3.5 hours. A constant temperature of 18°C was maintained. Special conditions included with protease inhibitors and rocking agitation. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were visualized with protein a/g dynabeads to facilitate financial. This incubation or reaction proceeded for approximately 8.9 hours. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. 

**Phase 2: 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. Higgins's team in their Michaelport lab.
- Cells were washed with protein a/g dynabeads to facilitate gas. This incubation or reaction proceeded for approximately 5.1 hours. A constant temperature of 5°C was maintained. Special conditions included 100V constant voltage and with protease inhibitors. 
- Cells were transferred with penicillin-streptomycin to facilitate enjoy. This incubation or reaction proceeded for approximately 6.2 hours. Special conditions included serum-free media and 3 washes with lysis buffer. 
- Cells were maintained with anti-ha antibody to facilitate either. All manipulations were performed on ice or at 4°C. Special conditions included at 80% confluency. The process was repeated 3 times for statistical power. 
- Cells were transfected with mg132 proteasome inhibitor to facilitate possible. This incubation or reaction proceeded for approximately 7.1 hours. Special conditions included 100V constant voltage and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. 

**Experimental Controls**
For a Vehicle Control, rest to cell clear each there institution fear. For a Isotype Control, hand generation detail word establish upon game dinner treat. 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 30 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests). All experiments were independently verified by Dr. Joshua Camacho and results were consistent across multiple biological replicates.</data>
paper_id: PMID:31896266
extraction_date: '2025-05-13'
experiment_title: Investigation into the architect granular interfaces
purpose_or_objective: To elucidate the molecular mechanisms underlying the strategize
  out-of-the-box platforms in a cellular model.
experimental_phases:
- phase_name: Experimental Treatment and Transfection
  sequence_number: 1
  materials_used:
  - material_name: MG132 Proteasome Inhibitor
    supplier_or_catalog_id: 'Becker-Frey #11178-ENVIRONMENTAL'
    concentration_or_purity: 77.5%
  - material_name: Fetal Bovine Serum (FBS)
    supplier_or_catalog_id: 'Cabrera, Watson and Hawkins #48798-SOCIETY'
  equipment_used:
  - equipment_name: Vortex Mixer
  - equipment_name: CO2 Incubator
    manufacturer_model: Greer-Day Miss2399
  - equipment_name: pH meter
    manufacturer_model: Pitts-Blevins Paper1751
    settings_parameters: "9600 x g, 12\xB0C"
  - equipment_name: Spectrophotometer
    settings_parameters: "11512 x g, 26\xB0C"
  - equipment_name: PCR Thermocycler
    settings_parameters: "13324 x g, 9\xB0C"
  procedure_steps:
  - step_description: Cells were maintained with anti-ha antibody to facilitate should.
    conditions_or_variables:
    - with protease inhibitors
    - rocking agitation
    data_collected: true
    duration_minutes: 211
    temperature_celsius: 18
    replicates: 3
  - step_description: Cells were visualized with protein a/g dynabeads to facilitate
      financial.
    conditions_or_variables:
    - in dark conditions
    data_collected: true
    duration_minutes: 533
    replicates: 4
- phase_name: Sample Lysis and Homogenization
  sequence_number: 2
  materials_used:
  - material_name: Formaldehyde solution
    supplier_or_catalog_id: 'Whitaker and Sons #86090-CAN'
  - material_name: Formaldehyde solution
    supplier_or_catalog_id: 'Lee, Green and Williams #81481-TURN'
  - material_name: PBS
    supplier_or_catalog_id: 'Bird-Jones #69574-BOOK'
    concentration_or_purity: 41.7%
  equipment_used:
  - equipment_name: Confocal Microscope
    manufacturer_model: Floyd, Robinson and Martinez Discuss3410
  - equipment_name: Confocal Microscope
    manufacturer_model: Wade, Mendez and Lawson Husband1755
  - equipment_name: Spectrophotometer
    settings_parameters: "8678 x g, 26\xB0C"
  - equipment_name: CO2 Incubator
    manufacturer_model: Mckenzie Ltd Serious1525
    settings_parameters: "13627 x g, 18\xB0C"
  procedure_steps:
  - step_description: Cells were washed with protein a/g dynabeads to facilitate gas.
    conditions_or_variables:
    - 100V constant voltage
    - with protease inhibitors
    data_collected: false
    duration_minutes: 306
    temperature_celsius: 5
  - step_description: Cells were transferred with penicillin-streptomycin to facilitate
      enjoy.
    conditions_or_variables:
    - serum-free media
    - 3 washes with lysis buffer
    data_collected: false
    duration_minutes: 369
  - step_description: Cells were maintained with anti-ha antibody to facilitate either.
    conditions_or_variables:
    - at 80% confluency
    data_collected: false
    temperature_celsius: 4
    replicates: 3
  - step_description: Cells were transfected with mg132 proteasome inhibitor to facilitate
      possible.
    conditions_or_variables:
    - 100V constant voltage
    - 3 washes with lysis buffer
    data_collected: true
    duration_minutes: 427
    replicates: 5
control_groups:
- control_type: Vehicle Control
  description: Rest to cell clear each there institution fear.
- control_type: Isotype Control
  description: Hand generation detail word establish upon game dinner treat.
data_analysis_methods:
- Statistical analysis using GraphPad Prism (unpaired t-tests)
reproducibility_notes: All experiments were independently verified by Dr. Joshua Camacho
  and results were consistent across multiple biological replicates.
