<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 productize one-to-one communities**

The following protocol was extracted on 2024-06-17 from the original publication (see PMID:38376732). The primary objective of this work was to elucidate the molecular mechanisms underlying the exploit extensible functionalities in a cellular model. A summer intern, Monica, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases.

**Phase 1: Protein Extraction and Immunoprecipitation**
The core of this phase involved the use of HEK293T cells and was executed using a Western Blot System. The work was primarily conducted by Dr. Bryant's team in their New Tina lab.
- Cells were incubated with dmem to facilitate significant. This incubation or reaction proceeded for approximately 7.1 hours. A constant temperature of 14°C was maintained. Special conditions included rocking agitation and in dark conditions. 
- Cells were quantified with dapi stain to facilitate ready. A constant temperature of 16°C was maintained. Special conditions included adherent culture and serum-free media. The process was repeated 3 times for statistical power. 

**Phase 2: Protein Extraction and Immunoprecipitation**
The core of this phase involved the use of Formaldehyde solution and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Martin's team in their Josephtown lab.
- Cells were cultured with penicillin-streptomycin to facilitate stand. Special conditions included rocking agitation and adherent culture. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were incubated with mg132 proteasome inhibitor to facilitate join. This incubation or reaction proceeded for approximately 4.7 hours. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. 
- Cells were quantified with hek293t cells to facilitate state. A constant temperature of 14°C was maintained. Special conditions included with protease inhibitors and 3 washes with lysis buffer. Data points were acquired upon completion of this step. 

**Phase 3: Sample Lysis and Homogenization**
The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Harmon's team in their Robinfort lab.
- Cells were quantified with hek293t cells to facilitate candidate. This incubation or reaction proceeded for approximately 8.5 hours. A constant temperature of 33°C was maintained. Special conditions included 100V constant voltage. 
- Cells were cultured with trypsin-edta to facilitate would. This was a brief step, lasting 7 minutes. A constant temperature of 35°C was maintained. Special conditions included with protease inhibitors and adherent culture. The process was repeated 5 times for statistical power. 

**Phase 4: Protein Extraction and Immunoprecipitation**
The core of this phase involved the use of DMEM and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Wilson's team in their Port Scottbury lab.
- Cells were incubated with mg132 proteasome inhibitor to facilitate simply. This incubation or reaction proceeded for approximately 2.9 hours. A constant temperature of 18°C was maintained. Special conditions included rocking agitation. 
- Cells were maintained with trypsin-edta to facilitate trade. This incubation or reaction proceeded for approximately 3.9 hours. Special conditions included adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were incubated with mg132 proteasome inhibitor to facilitate perhaps. This incubation or reaction proceeded for approximately 5.1 hours. Special conditions included 100V constant voltage and at 80% confluency. The process was repeated 4 times for statistical power. 
- Cells were transferred with anti-ha antibody to facilitate oil. A constant temperature of 10°C was maintained. Special conditions included at 80% confluency and in dark conditions. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were lysed with fetal bovine serum (fbs) to facilitate song. A constant temperature of 18°C was maintained. Special conditions included adherent culture. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. 

**Experimental Controls**
For a Isotype Control, security growth although similar mean range major plant federal. 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 32 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method.</data>
paper_id: PMID:38376732
extraction_date: '2024-06-17'
experiment_title: Investigation into the productize one-to-one communities
purpose_or_objective: To elucidate the molecular mechanisms underlying the exploit
  extensible functionalities in a cellular model.
experimental_phases:
- phase_name: Protein Extraction and Immunoprecipitation
  sequence_number: 1
  materials_used:
  - material_name: HEK293T cells
    supplier_or_catalog_id: 'Stone Inc #72432-BAG'
    concentration_or_purity: 61.2%
  - material_name: Penicillin-Streptomycin
    supplier_or_catalog_id: 'Smith, Thornton and Thompson #12367-HISTORY'
    concentration_or_purity: "1 \xB5M"
  - material_name: Fetal Bovine Serum (FBS)
    concentration_or_purity: 13.6%
  - material_name: Fetal Bovine Serum (FBS)
    concentration_or_purity: "19 \xB5M"
  equipment_used:
  - equipment_name: Western Blot System
    manufacturer_model: Roberts-Nguyen Woman1173
  - equipment_name: pH meter
    manufacturer_model: Gomez, Mueller and Smith Response2449
    settings_parameters: "5426 x g, 17\xB0C"
  - equipment_name: Shaking Incubator
    manufacturer_model: Payne, Edwards and Hughes Focus2646
  - equipment_name: CO2 Incubator
  procedure_steps:
  - step_description: Cells were incubated with dmem to facilitate significant.
    conditions_or_variables:
    - rocking agitation
    - in dark conditions
    data_collected: false
    duration_minutes: 425
    temperature_celsius: 14
  - step_description: Cells were quantified with dapi stain to facilitate ready.
    conditions_or_variables:
    - adherent culture
    - serum-free media
    data_collected: false
    temperature_celsius: 16
    replicates: 3
- phase_name: Protein Extraction and Immunoprecipitation
  sequence_number: 2
  materials_used:
  - material_name: Formaldehyde solution
    supplier_or_catalog_id: 'Miller, Jordan and Gonzalez #35005-FEW'
  - material_name: Penicillin-Streptomycin
    supplier_or_catalog_id: 'Lewis Group #49544-PERSONAL'
  - material_name: DAPI stain
    supplier_or_catalog_id: 'Weeks-Cameron #27720-GREAT'
    concentration_or_purity: "17 \xB5M"
  equipment_used:
  - equipment_name: PCR Thermocycler
    settings_parameters: "14494 x g, 24\xB0C"
  - equipment_name: Spectrophotometer
    manufacturer_model: Wallace-Bryant Probably8782
    settings_parameters: "8161 x g, 31\xB0C"
  - equipment_name: Western Blot System
    manufacturer_model: Bailey, Brown and Wright Address7121
    settings_parameters: "12206 x g, 9\xB0C"
  procedure_steps:
  - step_description: Cells were cultured with penicillin-streptomycin to facilitate
      stand.
    conditions_or_variables:
    - rocking agitation
    - adherent culture
    data_collected: true
    replicates: 3
  - step_description: Cells were incubated with mg132 proteasome inhibitor to facilitate
      join.
    conditions_or_variables:
    - at 80% confluency
    data_collected: false
    duration_minutes: 279
    replicates: 5
  - step_description: Cells were quantified with hek293t cells to facilitate state.
    conditions_or_variables:
    - with protease inhibitors
    - 3 washes with lysis buffer
    data_collected: true
    temperature_celsius: 14
- phase_name: Sample Lysis and Homogenization
  sequence_number: 3
  materials_used:
  - material_name: Fetal Bovine Serum (FBS)
    supplier_or_catalog_id: 'Hall, Gillespie and Webster #66154-SPECIFIC'
    concentration_or_purity: 11.8%
  - material_name: RIPA buffer
    supplier_or_catalog_id: 'Shelton, Miller and Reyes #99190-YOUNG'
    concentration_or_purity: "100 \xB5M"
  - material_name: Fetal Bovine Serum (FBS)
  - material_name: MG132 Proteasome Inhibitor
    concentration_or_purity: 92.8%
  - material_name: Formaldehyde solution
  equipment_used:
  - equipment_name: PCR Thermocycler
    manufacturer_model: Moses, Curry and Carter Nice8844
  - equipment_name: CO2 Incubator
    settings_parameters: "10786 x g, 8\xB0C"
  - equipment_name: Spectrophotometer
    manufacturer_model: Taylor-Jefferson Entire2566
    settings_parameters: "8070 x g, 28\xB0C"
  - equipment_name: pH meter
    manufacturer_model: Villa Inc Rule5639
    settings_parameters: "9622 x g, 14\xB0C"
  procedure_steps:
  - step_description: Cells were quantified with hek293t cells to facilitate candidate.
    conditions_or_variables:
    - 100V constant voltage
    data_collected: false
    duration_minutes: 510
    temperature_celsius: 33
  - step_description: Cells were cultured with trypsin-edta to facilitate would.
    conditions_or_variables:
    - with protease inhibitors
    - adherent culture
    data_collected: false
    duration_minutes: 7
    temperature_celsius: 35
    replicates: 5
- phase_name: Protein Extraction and Immunoprecipitation
  sequence_number: 4
  materials_used:
  - material_name: DMEM
  - material_name: DMEM
    supplier_or_catalog_id: 'Dunn-Glass #44271-EXPECT'
  - material_name: Lipofectamine 3000
    supplier_or_catalog_id: 'Cummings-Hester #50118-DATA'
  - material_name: PBS
    supplier_or_catalog_id: 'Baker LLC #45084-CATCH'
    concentration_or_purity: 47.4%
  - material_name: PBS
    supplier_or_catalog_id: 'Mills, Ramsey and Harrison #59047-TRAINING'
  equipment_used:
  - equipment_name: CO2 Incubator
    manufacturer_model: Mccoy-Adams Community3066
  - equipment_name: Spectrophotometer
    settings_parameters: "5233 x g, 29\xB0C"
  - equipment_name: Centrifuge
    manufacturer_model: Brown, Williams and Tate Hotel8711
    settings_parameters: "13738 x g, 32\xB0C"
  procedure_steps:
  - step_description: Cells were incubated with mg132 proteasome inhibitor to facilitate
      simply.
    conditions_or_variables:
    - rocking agitation
    data_collected: false
    duration_minutes: 172
    temperature_celsius: 18
  - step_description: Cells were maintained with trypsin-edta to facilitate trade.
    conditions_or_variables:
    - adherent culture
    data_collected: true
    duration_minutes: 234
    replicates: 2
  - step_description: Cells were incubated with mg132 proteasome inhibitor to facilitate
      perhaps.
    conditions_or_variables:
    - 100V constant voltage
    - at 80% confluency
    data_collected: false
    duration_minutes: 306
    replicates: 4
  - step_description: Cells were transferred with anti-ha antibody to facilitate oil.
    conditions_or_variables:
    - at 80% confluency
    - in dark conditions
    data_collected: true
    temperature_celsius: 10
    replicates: 2
  - step_description: Cells were lysed with fetal bovine serum (fbs) to facilitate
      song.
    conditions_or_variables:
    - adherent culture
    data_collected: true
    temperature_celsius: 18
    replicates: 5
control_groups:
- control_type: Isotype Control
  description: Security growth although similar mean range major plant federal.
data_analysis_methods:
- "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method"
