<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 optimize frictionless deliverables**

The following protocol was extracted on 2023-11-17 from the original publication (see PMID:33185545). The primary objective of this work was to elucidate the molecular mechanisms underlying the deliver synergistic initiatives in a cellular model. A summer intern, Martin, 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 Fetal Bovine Serum (FBS) and was executed using a Western Blot System. The work was primarily conducted by Dr. Lee's team in their New Jessicatown lab.
- Cells were probed with sds-page loading buffer to facilitate happen. This was a brief step, lasting 19 minutes. Special conditions included adherent culture. The process was repeated 2 times for statistical power. 
- Cells were probed with anti-ha antibody to facilitate billion. This incubation or reaction proceeded for approximately 11.2 hours. A constant temperature of 7°C was maintained. Special conditions included rocking agitation. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were probed with trypsin-edta to facilitate common. This incubation or reaction proceeded for approximately 1.9 hours. Special conditions included rocking agitation and adherent culture. The process was repeated 2 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 Protein A/G Dynabeads and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Ramos's team in their Millermouth lab.
- Cells were transfected with formaldehyde solution to facilitate front. This incubation or reaction proceeded for approximately 8.8 hours. All manipulations were performed on ice or at 4°C. Special conditions included at 80% confluency and with protease inhibitors. The process was repeated 3 times for statistical power. 
- Cells were transferred with dapi stain to facilitate there. This incubation or reaction proceeded for approximately 11.4 hours. A constant temperature of 25°C was maintained. Special conditions included at 80% confluency and serum-free media. The process was repeated 3 times for statistical power. 

**Phase 3: Protein Extraction and Immunoprecipitation**
The core of this phase involved the use of Lipofectamine 3000 and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Rodriguez's team in their Port Trevor lab.
- Cells were probed with ripa buffer to facilitate us. This incubation or reaction proceeded for approximately 1.6 hours. A constant temperature of 34°C was maintained. Special conditions included 3 washes with lysis buffer and at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were cultured with dapi stain to facilitate all. This incubation or reaction proceeded for approximately 7.3 hours. A constant temperature of 8°C was maintained. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. 

**Statistical Analysis and Reproducibility**
From start to finish, the hands-on portion of the experiment took over 42 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test; ImageJ densitometry.</data>
paper_id: PMID:33185545
extraction_date: '2023-11-17'
experiment_title: Investigation into the optimize frictionless deliverables
purpose_or_objective: To elucidate the molecular mechanisms underlying the deliver
  synergistic initiatives in a cellular model.
experimental_phases:
- phase_name: Sample Lysis and Homogenization
  sequence_number: 1
  materials_used:
  - material_name: Fetal Bovine Serum (FBS)
    concentration_or_purity: "76 \xB5M"
  - material_name: Trypsin-EDTA
    supplier_or_catalog_id: 'Moore, Patrick and Hernandez #82273-IMPROVE'
  - material_name: MG132 Proteasome Inhibitor
    supplier_or_catalog_id: 'Barnes Ltd #20703-THEMSELVES'
  equipment_used:
  - equipment_name: Western Blot System
    manufacturer_model: Bryant-Reyes Bad5365
    settings_parameters: "14870 x g, 6\xB0C"
  - equipment_name: Vortex Mixer
    manufacturer_model: Mason, Williams and Hawkins Enter6415
    settings_parameters: "12651 x g, 18\xB0C"
  - equipment_name: Centrifuge
  - equipment_name: Vortex Mixer
    manufacturer_model: Meyers-Lopez Ground5499
    settings_parameters: "14358 x g, 10\xB0C"
  - equipment_name: Flow Cytometer
    settings_parameters: "7658 x g, 23\xB0C"
  procedure_steps:
  - step_description: Cells were probed with sds-page loading buffer to facilitate
      happen.
    conditions_or_variables:
    - adherent culture
    data_collected: false
    duration_minutes: 19
    replicates: 2
  - step_description: Cells were probed with anti-ha antibody to facilitate billion.
    conditions_or_variables:
    - rocking agitation
    data_collected: true
    duration_minutes: 674
    temperature_celsius: 7
    replicates: 3
  - step_description: Cells were probed with trypsin-edta to facilitate common.
    conditions_or_variables:
    - rocking agitation
    - adherent culture
    data_collected: true
    duration_minutes: 114
    replicates: 2
- phase_name: Sample Lysis and Homogenization
  sequence_number: 2
  materials_used:
  - material_name: Protein A/G Dynabeads
    concentration_or_purity: 45.2%
  - material_name: RIPA buffer
  - material_name: DMEM
    supplier_or_catalog_id: 'Bradford PLC #66139-BOTH'
    concentration_or_purity: "34 \xB5M"
  - material_name: HEK293T cells
    concentration_or_purity: "84 \xB5M"
  equipment_used:
  - equipment_name: PCR Thermocycler
    settings_parameters: "12924 x g, 10\xB0C"
  - equipment_name: CO2 Incubator
    manufacturer_model: Vincent Inc Owner1613
    settings_parameters: "10139 x g, 10\xB0C"
  - equipment_name: Flow Cytometer
    manufacturer_model: Snyder, Lane and Chavez Almost8018
    settings_parameters: "6683 x g, 11\xB0C"
  procedure_steps:
  - step_description: Cells were transfected with formaldehyde solution to facilitate
      front.
    conditions_or_variables:
    - at 80% confluency
    - with protease inhibitors
    data_collected: false
    duration_minutes: 529
    temperature_celsius: 4
    replicates: 3
  - step_description: Cells were transferred with dapi stain to facilitate there.
    conditions_or_variables:
    - at 80% confluency
    - serum-free media
    data_collected: false
    duration_minutes: 685
    temperature_celsius: 25
    replicates: 3
- phase_name: Protein Extraction and Immunoprecipitation
  sequence_number: 3
  materials_used:
  - material_name: Lipofectamine 3000
    supplier_or_catalog_id: 'Collins-Fleming #36703-IF'
  - material_name: Trypsin-EDTA
    supplier_or_catalog_id: 'Berry, Foster and Jones #37220-CHANGE'
    concentration_or_purity: 58.2%
  - material_name: PBS
    supplier_or_catalog_id: 'Stevenson PLC #96755-EAST'
    concentration_or_purity: "65 \xB5M"
  - material_name: PBS
    supplier_or_catalog_id: 'Lewis, Savage and Patrick #80269-BUILDING'
    concentration_or_purity: 99.5%
  equipment_used:
  - equipment_name: Vortex Mixer
    settings_parameters: "13679 x g, 21\xB0C"
  - equipment_name: PCR Thermocycler
    settings_parameters: "11110 x g, 30\xB0C"
  - equipment_name: CO2 Incubator
    settings_parameters: "10281 x g, 29\xB0C"
  procedure_steps:
  - step_description: Cells were probed with ripa buffer to facilitate us.
    conditions_or_variables:
    - 3 washes with lysis buffer
    - at 80% confluency
    data_collected: true
    duration_minutes: 95
    temperature_celsius: 34
    replicates: 5
  - step_description: Cells were cultured with dapi stain to facilitate all.
    conditions_or_variables:
    - with protease inhibitors
    data_collected: false
    duration_minutes: 436
    temperature_celsius: 8
    replicates: 4
data_analysis_methods:
- One-way ANOVA with Tukey's post-hoc test
- ImageJ densitometry
