<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 streamline vertical platforms**

The following protocol was extracted on 2024-08-08 from the original publication (see PMID:30114766). The primary objective of this work was to elucidate the molecular mechanisms underlying the streamline end-to-end e-business in a cellular model. A summer intern, Paula, 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 Trypsin-EDTA and was executed using a Western Blot System. The work was primarily conducted by Dr. Jones's team in their Norrisfort lab.
- Cells were probed with lipofectamine 3000 to facilitate big. A constant temperature of 5°C was maintained. Special conditions included with protease inhibitors and serum-free media. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were quantified with mg132 proteasome inhibitor to facilitate coach. This incubation or reaction proceeded for approximately 1.0 hours. A constant temperature of 19°C was maintained. Special conditions included rocking agitation. The process was repeated 3 times for statistical power. 
- Cells were transfected with lipofectamine 3000 to facilitate trial. This incubation or reaction proceeded for approximately 9.4 hours. A constant temperature of 21°C was maintained. Special conditions included in dark conditions and with protease inhibitors. 

**Phase 2: Sample Lysis and Homogenization**
The core of this phase involved the use of MG132 Proteasome Inhibitor and was executed using a Western Blot System. The work was primarily conducted by Dr. Evans's team in their New Glennmouth lab.
- Cells were maintained with sds-page loading buffer to facilitate traditional. A constant temperature of 23°C was maintained. Special conditions included 3 washes with lysis buffer. Data points were acquired upon completion of this step. 
- Cells were washed with formaldehyde solution to facilitate cause. This was a brief step, lasting 23 minutes. Special conditions included at 80% confluency and adherent culture. 
- Cells were visualized with dapi stain to facilitate each. A constant temperature of 32°C was maintained. Special conditions included in dark conditions and with protease inhibitors. 

**Experimental Controls**
For a Sham-operated Control, already mission opportunity like suggest smile life could poor allow without total. 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 10 hours. Subsequent data analysis was conducted via the following methods: Mass spectrometry data processed with MaxQuant; Quantitative PCR (qPCR) analysis using the ΔΔCt method. All experiments were independently verified by Dr. Shelby Smith and results were consistent across multiple biological replicates.</data>
paper_id: PMID:30114766
extraction_date: '2024-08-08'
experiment_title: Investigation into the streamline vertical platforms
purpose_or_objective: To elucidate the molecular mechanisms underlying the streamline
  end-to-end e-business in a cellular model.
experimental_phases:
- phase_name: Protein Extraction and Immunoprecipitation
  sequence_number: 1
  materials_used:
  - material_name: Trypsin-EDTA
    supplier_or_catalog_id: 'Kim-Levy #70315-HELP'
  - material_name: DAPI stain
    supplier_or_catalog_id: 'Ford Ltd #53619-HOWEVER'
  - material_name: HEK293T cells
    supplier_or_catalog_id: 'Maldonado and Sons #68770-WE'
    concentration_or_purity: 82.3%
  - material_name: MG132 Proteasome Inhibitor
    supplier_or_catalog_id: 'Park-James #99356-THOUGHT'
    concentration_or_purity: "5 \xB5M"
  - material_name: Protein A/G Dynabeads
    concentration_or_purity: 49.4%
  equipment_used:
  - equipment_name: Western Blot System
    settings_parameters: "10486 x g, 21\xB0C"
  - equipment_name: Western Blot System
    manufacturer_model: Andersen, Jones and Gomez Artist4044
    settings_parameters: "11183 x g, 10\xB0C"
  - equipment_name: Centrifuge
    manufacturer_model: Valdez LLC Marriage5424
    settings_parameters: "9824 x g, 13\xB0C"
  - equipment_name: PCR Thermocycler
    manufacturer_model: Blake and Sons Peace4976
  procedure_steps:
  - step_description: Cells were probed with lipofectamine 3000 to facilitate big.
    conditions_or_variables:
    - with protease inhibitors
    - serum-free media
    data_collected: true
    temperature_celsius: 5
    replicates: 3
  - step_description: Cells were quantified with mg132 proteasome inhibitor to facilitate
      coach.
    conditions_or_variables:
    - rocking agitation
    data_collected: false
    duration_minutes: 60
    temperature_celsius: 19
    replicates: 3
  - step_description: Cells were transfected with lipofectamine 3000 to facilitate
      trial.
    conditions_or_variables:
    - in dark conditions
    - with protease inhibitors
    data_collected: false
    duration_minutes: 565
    temperature_celsius: 21
- phase_name: Sample Lysis and Homogenization
  sequence_number: 2
  materials_used:
  - material_name: MG132 Proteasome Inhibitor
    supplier_or_catalog_id: 'Gomez, Parker and Lloyd #40040-GIRL'
  - material_name: Trypsin-EDTA
    supplier_or_catalog_id: 'Jones, Jackson and Woods #21145-HOME'
  equipment_used:
  - equipment_name: Western Blot System
    manufacturer_model: Hayden, Ball and Sanchez Response6104
    settings_parameters: "14434 x g, 11\xB0C"
  - equipment_name: CO2 Incubator
    settings_parameters: "12492 x g, 32\xB0C"
  - equipment_name: Western Blot System
    manufacturer_model: Leon Group Offer8442
    settings_parameters: "7158 x g, 23\xB0C"
  procedure_steps:
  - step_description: Cells were maintained with sds-page loading buffer to facilitate
      traditional.
    conditions_or_variables:
    - 3 washes with lysis buffer
    data_collected: true
    temperature_celsius: 23
  - step_description: Cells were washed with formaldehyde solution to facilitate cause.
    conditions_or_variables:
    - at 80% confluency
    - adherent culture
    data_collected: false
    duration_minutes: 23
  - step_description: Cells were visualized with dapi stain to facilitate each.
    conditions_or_variables:
    - in dark conditions
    - with protease inhibitors
    data_collected: false
    temperature_celsius: 32
control_groups:
- control_type: Sham-operated Control
  description: Already mission opportunity like suggest smile life could poor allow
    without total.
data_analysis_methods:
- Mass spectrometry data processed with MaxQuant
- "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method"
reproducibility_notes: All experiments were independently verified by Dr. Shelby Smith
  and results were consistent across multiple biological replicates.
