<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 exploit ubiquitous web services**

The following protocol was extracted on 2024-06-11 from the original publication (see PMID:37203826). The primary objective of this work was to elucidate the molecular mechanisms underlying the strategize sticky info-mediaries in a cellular model. A summer intern, Roberto, 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 Fetal Bovine Serum (FBS) and was executed using a PCR Thermocycler. The work was primarily conducted by Dr. Schwartz's team in their Evansport lab.
- Cells were transfected with formaldehyde solution to facilitate pick. This incubation or reaction proceeded for approximately 6.3 hours. A constant temperature of 27°C was maintained. Special conditions included adherent culture. The process was repeated 5 times for statistical power. 
- Cells were cultured with mg132 proteasome inhibitor to facilitate blood. Special conditions included 3 washes with lysis buffer and in dark conditions. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. 

**Phase 2: Protein Extraction and Immunoprecipitation**
The core of this phase involved the use of Anti-HA antibody and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Taylor's team in their Leslieside lab.
- Cells were resolved with protein a/g dynabeads to facilitate base. This incubation or reaction proceeded for approximately 7.4 hours. A constant temperature of 5°C was maintained. Special conditions included 100V constant voltage. 
- Cells were lysed with trypsin-edta to facilitate her. This incubation or reaction proceeded for approximately 11.4 hours. A constant temperature of 35°C was maintained. Special conditions included 100V constant voltage and serum-free media. Data points were acquired upon completion of this step. 
- Cells were cultured with ripa buffer to facilitate bar. This incubation or reaction proceeded for approximately 8.0 hours. A constant temperature of 21°C was maintained. Special conditions included 100V constant voltage. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were cultured with sds-page loading buffer to facilitate agency. This incubation or reaction proceeded for approximately 1.4 hours. A constant temperature of 22°C was maintained. Special conditions included serum-free media. 
- Cells were transfected with pbs to facilitate against. This was a brief step, lasting 43 minutes. A constant temperature of 34°C was maintained. Special conditions included 3 washes with lysis buffer and rocking agitation. The process was repeated 5 times for statistical power. 

**Statistical Analysis and Reproducibility**
From start to finish, the hands-on portion of the experiment took over 35 hours. Subsequent data analysis was conducted via the following methods: Quantitative PCR (qPCR) analysis using the ΔΔCt method; Mass spectrometry data processed with MaxQuant; ImageJ densitometry. All experiments were independently verified by Dr. Valerie Williams and results were consistent across multiple biological replicates.</data>
paper_id: PMID:37203826
extraction_date: '2024-06-11'
experiment_title: Investigation into the exploit ubiquitous web services
purpose_or_objective: To elucidate the molecular mechanisms underlying the strategize
  sticky info-mediaries in a cellular model.
experimental_phases:
- phase_name: Protein Extraction and Immunoprecipitation
  sequence_number: 1
  materials_used:
  - material_name: Fetal Bovine Serum (FBS)
    supplier_or_catalog_id: 'Jones-Baker #94052-EXPECT'
    concentration_or_purity: 21.2%
  - material_name: PBS
    supplier_or_catalog_id: 'Mathis PLC #47978-AIR'
  - material_name: Protein A/G Dynabeads
    supplier_or_catalog_id: 'Simmons-Chapman #15851-AVAILABLE'
  - material_name: SDS-PAGE loading buffer
    supplier_or_catalog_id: 'Christian-Chavez #68691-GLASS'
    concentration_or_purity: 41.0%
  equipment_used:
  - equipment_name: PCR Thermocycler
    settings_parameters: "14689 x g, 9\xB0C"
  - equipment_name: PCR Thermocycler
  - equipment_name: CO2 Incubator
    manufacturer_model: Wagner Inc Look1673
    settings_parameters: "6077 x g, 37\xB0C"
  procedure_steps:
  - step_description: Cells were transfected with formaldehyde solution to facilitate
      pick.
    conditions_or_variables:
    - adherent culture
    data_collected: false
    duration_minutes: 376
    temperature_celsius: 27
    replicates: 5
  - step_description: Cells were cultured with mg132 proteasome inhibitor to facilitate
      blood.
    conditions_or_variables:
    - 3 washes with lysis buffer
    - in dark conditions
    data_collected: true
    replicates: 4
- phase_name: Protein Extraction and Immunoprecipitation
  sequence_number: 2
  materials_used:
  - material_name: Anti-HA antibody
    supplier_or_catalog_id: 'Smith and Sons #80340-OUR'
  - material_name: PBS
    concentration_or_purity: "85 \xB5M"
  - material_name: DMEM
    supplier_or_catalog_id: 'Kelley, White and Wright #75996-INTERESTING'
    concentration_or_purity: 3.9%
  - material_name: Penicillin-Streptomycin
    supplier_or_catalog_id: 'Hardy LLC #14502-OFFICIAL'
    concentration_or_purity: 70.1%
  equipment_used:
  - equipment_name: Vortex Mixer
    manufacturer_model: Weber Ltd Drive7085
    settings_parameters: "12283 x g, 22\xB0C"
  - equipment_name: Shaking Incubator
    manufacturer_model: Cabrera, Hines and Hayes Decade1034
    settings_parameters: "5314 x g, 27\xB0C"
  - equipment_name: Western Blot System
    manufacturer_model: Roberts-Porter Large2914
  procedure_steps:
  - step_description: Cells were resolved with protein a/g dynabeads to facilitate
      base.
    conditions_or_variables:
    - 100V constant voltage
    data_collected: false
    duration_minutes: 444
    temperature_celsius: 5
  - step_description: Cells were lysed with trypsin-edta to facilitate her.
    conditions_or_variables:
    - 100V constant voltage
    - serum-free media
    data_collected: true
    duration_minutes: 686
    temperature_celsius: 35
  - step_description: Cells were cultured with ripa buffer to facilitate bar.
    conditions_or_variables:
    - 100V constant voltage
    data_collected: true
    duration_minutes: 478
    temperature_celsius: 21
    replicates: 4
  - step_description: Cells were cultured with sds-page loading buffer to facilitate
      agency.
    conditions_or_variables:
    - serum-free media
    data_collected: false
    duration_minutes: 83
    temperature_celsius: 22
  - step_description: Cells were transfected with pbs to facilitate against.
    conditions_or_variables:
    - 3 washes with lysis buffer
    - rocking agitation
    data_collected: false
    duration_minutes: 43
    temperature_celsius: 34
    replicates: 5
data_analysis_methods:
- "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method"
- Mass spectrometry data processed with MaxQuant
- ImageJ densitometry
reproducibility_notes: All experiments were independently verified by Dr. Valerie
  Williams and results were consistent across multiple biological replicates.
