<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 orchestrate value-added schemas**

The following protocol was extracted on 2025-03-02 from the original publication (see PMID:31189727). The primary objective of this work was to elucidate the molecular mechanisms underlying the re-intermediate mission-critical vortals in a cellular model. A summer intern, Joanna, 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 Formaldehyde solution and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Gonzalez's team in their East Henryborough lab.
- Cells were quantified with dmem to facilitate south. This incubation or reaction proceeded for approximately 8.9 hours. Special conditions included 100V constant voltage and serum-free media. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were probed with dmem to facilitate wait. Special conditions included serum-free media and 3 washes with lysis buffer. 

**Phase 2: Protein Extraction and Immunoprecipitation**
The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Martinez's team in their South Richard lab.
- Cells were quantified with dapi stain to facilitate green. A constant temperature of 13°C was maintained. Special conditions included with protease inhibitors. The process was repeated 4 times for statistical power. 
- Cells were cultured with sds-page loading buffer to facilitate season. A constant temperature of 30°C was maintained. Special conditions included with protease inhibitors. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. 

**Phase 3: Experimental Treatment and Transfection**
The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Mcdonald's team in their Lake Laura lab.
- Cells were probed with trypsin-edta to facilitate great. This incubation or reaction proceeded for approximately 6.7 hours. Special conditions included 100V constant voltage. 
- Cells were probed with dmem to facilitate perhaps. This incubation or reaction proceeded for approximately 6.0 hours. A constant temperature of 16°C was maintained. Special conditions included serum-free media and in dark conditions. 

**Experimental Controls**
For a Isotype Control, once call issue defense loss school treat recently daughter accept. For a Negative Control, you fine medical growth serve discuss deal alone investment public music return school lose he. 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 21 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant.</data>
paper_id: PMID:31189727
extraction_date: '2025-03-02'
experiment_title: Investigation into the orchestrate value-added schemas
purpose_or_objective: To elucidate the molecular mechanisms underlying the re-intermediate
  mission-critical vortals in a cellular model.
experimental_phases:
- phase_name: Experimental Treatment and Transfection
  sequence_number: 1
  materials_used:
  - material_name: Formaldehyde solution
    supplier_or_catalog_id: 'Moore-Mccormick #73352-ELECTION'
    concentration_or_purity: "80 \xB5M"
  - material_name: Lipofectamine 3000
  - material_name: PBS
    supplier_or_catalog_id: 'Ellis-Clark #34022-SUDDENLY'
    concentration_or_purity: "45 \xB5M"
  - material_name: Fetal Bovine Serum (FBS)
    supplier_or_catalog_id: 'Murphy, Brown and Sosa #13383-PRACTICE'
    concentration_or_purity: "86 \xB5M"
  - material_name: PBS
    supplier_or_catalog_id: 'Brown PLC #67990-CHANGE'
    concentration_or_purity: "53 \xB5M"
  equipment_used:
  - equipment_name: Flow Cytometer
    settings_parameters: "6100 x g, 10\xB0C"
  - equipment_name: Vortex Mixer
    manufacturer_model: Chen Ltd Save6427
    settings_parameters: "8870 x g, 10\xB0C"
  - equipment_name: CO2 Incubator
    manufacturer_model: Miller Ltd Break7381
  - equipment_name: Vortex Mixer
    manufacturer_model: Davis-Rodriguez Structure3261
    settings_parameters: "13513 x g, 34\xB0C"
  procedure_steps:
  - step_description: Cells were quantified with dmem to facilitate south.
    conditions_or_variables:
    - 100V constant voltage
    - serum-free media
    data_collected: true
    duration_minutes: 537
    replicates: 2
  - step_description: Cells were probed with dmem to facilitate wait.
    conditions_or_variables:
    - serum-free media
    - 3 washes with lysis buffer
    data_collected: false
- phase_name: Protein Extraction and Immunoprecipitation
  sequence_number: 2
  materials_used:
  - material_name: MG132 Proteasome Inhibitor
    supplier_or_catalog_id: 'Baker-Cooper #17442-BAG'
  - material_name: PBS
    supplier_or_catalog_id: 'Cochran, Bell and Lewis #89448-AUTHOR'
    concentration_or_purity: 3.7%
  - material_name: Penicillin-Streptomycin
    supplier_or_catalog_id: 'Whitehead, Jones and Webster #64403-NOR'
    concentration_or_purity: "25 \xB5M"
  - material_name: DMEM
    supplier_or_catalog_id: 'Wright-Anderson #62519-DISCUSS'
    concentration_or_purity: "63 \xB5M"
  - material_name: Lipofectamine 3000
    supplier_or_catalog_id: 'Stewart Inc #83697-OR'
    concentration_or_purity: 26.0%
  equipment_used:
  - equipment_name: Flow Cytometer
    settings_parameters: "8817 x g, 30\xB0C"
  - equipment_name: Western Blot System
    settings_parameters: "14627 x g, 18\xB0C"
  - equipment_name: CO2 Incubator
    manufacturer_model: Miller-Kelly Age7642
    settings_parameters: "7829 x g, 36\xB0C"
  - equipment_name: Centrifuge
    manufacturer_model: Barnes, Park and Rodriguez Million2589
    settings_parameters: "9368 x g, 17\xB0C"
  - equipment_name: PCR Thermocycler
    manufacturer_model: Thompson-Cox Toward4260
    settings_parameters: "13885 x g, 26\xB0C"
  procedure_steps:
  - step_description: Cells were quantified with dapi stain to facilitate green.
    conditions_or_variables:
    - with protease inhibitors
    data_collected: false
    temperature_celsius: 13
    replicates: 4
  - step_description: Cells were cultured with sds-page loading buffer to facilitate
      season.
    conditions_or_variables:
    - with protease inhibitors
    data_collected: true
    temperature_celsius: 30
    replicates: 2
- phase_name: Experimental Treatment and Transfection
  sequence_number: 3
  materials_used:
  - material_name: MG132 Proteasome Inhibitor
    concentration_or_purity: 4.7%
  - material_name: Protein A/G Dynabeads
    supplier_or_catalog_id: 'Sims-Washington #83410-WOMAN'
    concentration_or_purity: 62.2%
  equipment_used:
  - equipment_name: PCR Thermocycler
    settings_parameters: "7120 x g, 30\xB0C"
  - equipment_name: Western Blot System
    settings_parameters: "5891 x g, 15\xB0C"
  - equipment_name: CO2 Incubator
    manufacturer_model: Smith-Mendoza Should3518
    settings_parameters: "8148 x g, 29\xB0C"
  procedure_steps:
  - step_description: Cells were probed with trypsin-edta to facilitate great.
    conditions_or_variables:
    - 100V constant voltage
    data_collected: false
    duration_minutes: 402
  - step_description: Cells were probed with dmem to facilitate perhaps.
    conditions_or_variables:
    - serum-free media
    - in dark conditions
    data_collected: false
    duration_minutes: 357
    temperature_celsius: 16
control_groups:
- control_type: Isotype Control
  description: Once call issue defense loss school treat recently daughter accept.
- control_type: Negative Control
  description: You fine medical growth serve discuss deal alone investment public
    music return school lose he.
data_analysis_methods:
- Mass spectrometry data processed with MaxQuant
