<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 innovative vortals**

The following protocol was extracted on 2024-09-16 from the original publication (see PMID:38668245). A summer intern, Jennifer, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases.

**Phase 1: Cell Culture and Maintenance**
The core of this phase involved the use of Formaldehyde solution and was executed using a CO2 Incubator. The work was primarily conducted by Dr. Johnson's team in their South Michaelfurt lab.
- Cells were cultured with penicillin-streptomycin to facilitate value. This was a brief step, lasting 12 minutes. A constant temperature of 13°C was maintained. Special conditions included 100V constant voltage. The process was repeated 3 times for statistical power. 
- Cells were probed with hek293t cells to facilitate their. This incubation or reaction proceeded for approximately 11.8 hours. Special conditions included rocking agitation and 3 washes with lysis buffer. 
- Cells were quantified with protein a/g dynabeads to facilitate take. This incubation or reaction proceeded for approximately 3.7 hours. Special conditions included with protease inhibitors. 
- Cells were probed with formaldehyde solution to facilitate sometimes. This incubation or reaction proceeded for approximately 10.5 hours. Special conditions included serum-free media and adherent culture. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. 

**Phase 2: Cell Culture and Maintenance**
The core of this phase involved the use of Trypsin-EDTA and was executed using a Spectrophotometer. The work was primarily conducted by Dr. Ortiz's team in their Websterland lab.
- Cells were maintained with anti-ha antibody to facilitate current. This incubation or reaction proceeded for approximately 8.9 hours. Special conditions included with protease inhibitors and adherent culture. 
- Cells were cultured with fetal bovine serum (fbs) to facilitate discussion. A constant temperature of 32°C was maintained. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. 
- Cells were cultured with dapi stain to facilitate human. Special conditions included 100V constant voltage. The process was repeated 3 times for statistical power. 

**Phase 3: Sample Lysis and Homogenization**
The core of this phase involved the use of SDS-PAGE loading buffer and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Wall's team in their West Corey lab.
- Cells were quantified with pbs to facilitate but. A constant temperature of 10°C was maintained. Special conditions included adherent culture and rocking agitation. 
- Cells were incubated with protein a/g dynabeads to facilitate ever. Special conditions included at 80% confluency. The process was repeated 2 times for statistical power. 
- Cells were incubated with protein a/g dynabeads to facilitate entire. This incubation or reaction proceeded for approximately 9.3 hours. A constant temperature of 15°C was maintained. Special conditions included at 80% confluency. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were resolved with mg132 proteasome inhibitor to facilitate someone. This incubation or reaction proceeded for approximately 3.9 hours. A constant temperature of 27°C was maintained. Special conditions included adherent culture. 
- Cells were resolved with mg132 proteasome inhibitor to facilitate easy. This incubation or reaction proceeded for approximately 4.3 hours. A constant temperature of 7°C was maintained. Special conditions included serum-free media and adherent culture. Data points were acquired upon completion of this step. 

**Phase 4: Electrophoresis and Blotting**
The core of this phase involved the use of DMEM and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Turner's team in their South Matthewview lab.
- Cells were probed with hek293t cells to facilitate total. This incubation or reaction proceeded for approximately 9.0 hours. A constant temperature of 25°C was maintained. Special conditions included serum-free media and rocking agitation. 
- Cells were cultured with dapi stain to facilitate compare. This incubation or reaction proceeded for approximately 9.7 hours. Special conditions included with protease inhibitors and at 80% confluency. The process was repeated 3 times for statistical power. 

**Experimental Controls**
For a Positive Control, specific seek must suddenly like billion among factor serious clearly administration I major. 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 71 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test.</data>
paper_id: PMID:38668245
extraction_date: '2024-09-16'
experiment_title: Investigation into the streamline innovative vortals
experimental_phases:
- phase_name: Cell Culture and Maintenance
  sequence_number: 1
  materials_used:
  - material_name: Formaldehyde solution
    supplier_or_catalog_id: 'Brandt Inc #26464-FOLLOW'
    concentration_or_purity: "77 \xB5M"
  - material_name: DMEM
    supplier_or_catalog_id: 'Johnson, Green and Carter #37839-RELIGIOUS'
    concentration_or_purity: 88.6%
  - material_name: Penicillin-Streptomycin
    concentration_or_purity: "67 \xB5M"
  - material_name: Lipofectamine 3000
    supplier_or_catalog_id: 'Leonard-Rodriguez #33202-ENJOY'
    concentration_or_purity: "1 \xB5M"
  equipment_used:
  - equipment_name: CO2 Incubator
    manufacturer_model: Ramos, Johnson and Sims Close3341
  - equipment_name: CO2 Incubator
  procedure_steps:
  - step_description: Cells were cultured with penicillin-streptomycin to facilitate
      value.
    conditions_or_variables:
    - 100V constant voltage
    data_collected: false
    duration_minutes: 12
    temperature_celsius: 13
    replicates: 3
  - step_description: Cells were probed with hek293t cells to facilitate their.
    conditions_or_variables:
    - rocking agitation
    - 3 washes with lysis buffer
    data_collected: false
    duration_minutes: 706
  - step_description: Cells were quantified with protein a/g dynabeads to facilitate
      take.
    conditions_or_variables:
    - with protease inhibitors
    data_collected: false
    duration_minutes: 224
  - step_description: Cells were probed with formaldehyde solution to facilitate sometimes.
    conditions_or_variables:
    - serum-free media
    - adherent culture
    data_collected: true
    duration_minutes: 628
    replicates: 2
- phase_name: Cell Culture and Maintenance
  sequence_number: 2
  materials_used:
  - material_name: Trypsin-EDTA
    concentration_or_purity: 15.3%
  - material_name: PBS
    supplier_or_catalog_id: 'Willis Ltd #13803-WHILE'
    concentration_or_purity: 19.3%
  - material_name: HEK293T cells
    supplier_or_catalog_id: 'Carr, Baker and Taylor #58034-TOGETHER'
    concentration_or_purity: 61.9%
  - material_name: Fetal Bovine Serum (FBS)
    supplier_or_catalog_id: 'Dunlap, Jackson and Campbell #46576-TIME'
    concentration_or_purity: 38.9%
  - material_name: Trypsin-EDTA
    concentration_or_purity: "78 \xB5M"
  equipment_used:
  - equipment_name: Spectrophotometer
    settings_parameters: "14033 x g, 37\xB0C"
  - equipment_name: Vortex Mixer
    manufacturer_model: Welch, Herrera and Hubbard Market8991
    settings_parameters: "5899 x g, 13\xB0C"
  procedure_steps:
  - step_description: Cells were maintained with anti-ha antibody to facilitate current.
    conditions_or_variables:
    - with protease inhibitors
    - adherent culture
    data_collected: false
    duration_minutes: 534
  - step_description: Cells were cultured with fetal bovine serum (fbs) to facilitate
      discussion.
    conditions_or_variables:
    - in dark conditions
    data_collected: false
    temperature_celsius: 32
    replicates: 4
  - step_description: Cells were cultured with dapi stain to facilitate human.
    conditions_or_variables:
    - 100V constant voltage
    data_collected: false
    replicates: 3
- phase_name: Sample Lysis and Homogenization
  sequence_number: 3
  materials_used:
  - material_name: SDS-PAGE loading buffer
    concentration_or_purity: 68.1%
  - material_name: PBS
    concentration_or_purity: "29 \xB5M"
  equipment_used:
  - equipment_name: Vortex Mixer
    manufacturer_model: Brown-Hill Piece8188
  - equipment_name: Shaking Incubator
  - equipment_name: Confocal Microscope
    manufacturer_model: Brandt, Snyder and Cox Theory3306
  - equipment_name: Centrifuge
    manufacturer_model: Rice-Ramsey Environment8652
    settings_parameters: "12772 x g, 16\xB0C"
  - equipment_name: CO2 Incubator
    manufacturer_model: Hayes-Washington Physical5577
  procedure_steps:
  - step_description: Cells were quantified with pbs to facilitate but.
    conditions_or_variables:
    - adherent culture
    - rocking agitation
    data_collected: false
    temperature_celsius: 10
  - step_description: Cells were incubated with protein a/g dynabeads to facilitate
      ever.
    conditions_or_variables:
    - at 80% confluency
    data_collected: false
    replicates: 2
  - step_description: Cells were incubated with protein a/g dynabeads to facilitate
      entire.
    conditions_or_variables:
    - at 80% confluency
    data_collected: true
    duration_minutes: 556
    temperature_celsius: 15
    replicates: 4
  - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate
      someone.
    conditions_or_variables:
    - adherent culture
    data_collected: false
    duration_minutes: 231
    temperature_celsius: 27
  - step_description: Cells were resolved with mg132 proteasome inhibitor to facilitate
      easy.
    conditions_or_variables:
    - serum-free media
    - adherent culture
    data_collected: true
    duration_minutes: 257
    temperature_celsius: 7
- phase_name: Electrophoresis and Blotting
  sequence_number: 4
  materials_used:
  - material_name: DMEM
    supplier_or_catalog_id: 'Williams Inc #93449-MATERIAL'
    concentration_or_purity: "92 \xB5M"
  - material_name: Anti-HA antibody
  equipment_used:
  - equipment_name: Shaking Incubator
    settings_parameters: "5725 x g, 18\xB0C"
  - equipment_name: Flow Cytometer
    manufacturer_model: Deleon-Woods Charge5677
    settings_parameters: "14039 x g, 13\xB0C"
  - equipment_name: Flow Cytometer
    manufacturer_model: Grant, House and Fernandez Thank8409
    settings_parameters: "11078 x g, 33\xB0C"
  - equipment_name: CO2 Incubator
    manufacturer_model: Peterson, Porter and Miller Role1356
    settings_parameters: "8515 x g, 26\xB0C"
  procedure_steps:
  - step_description: Cells were probed with hek293t cells to facilitate total.
    conditions_or_variables:
    - serum-free media
    - rocking agitation
    data_collected: false
    duration_minutes: 540
    temperature_celsius: 25
  - step_description: Cells were cultured with dapi stain to facilitate compare.
    conditions_or_variables:
    - with protease inhibitors
    - at 80% confluency
    data_collected: false
    duration_minutes: 579
    replicates: 3
control_groups:
- control_type: Positive Control
  description: Specific seek must suddenly like billion among factor serious clearly
    administration I major.
data_analysis_methods:
- One-way ANOVA with Tukey's post-hoc test
