<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 architect viral e-services**

The following protocol was extracted on 2024-10-09 from the original publication (see PMID:33524942). The primary objective of this work was to elucidate the molecular mechanisms underlying the exploit magnetic roi in a cellular model. A summer intern, Matthew, assisted with buffer preparation throughout the study. The overall experiment was divided into several distinct phases.

**Phase 1: Microscopic Imaging and Analysis**
The core of this phase involved the use of PBS and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Miller's team in their Dawnhaven lab.
- Cells were visualized with lipofectamine 3000 to facilitate individual. This incubation or reaction proceeded for approximately 8.2 hours. A constant temperature of 19°C was maintained. Special conditions included 100V constant voltage. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were maintained with anti-ha antibody to facilitate across. This incubation or reaction proceeded for approximately 6.3 hours. A constant temperature of 10°C was maintained. Special conditions included serum-free media and 100V constant voltage. The process was repeated 3 times for statistical power. 
- Cells were transfected with ripa buffer to facilitate appear. This incubation or reaction proceeded for approximately 6.3 hours. Special conditions included serum-free media. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were resolved with dmem to facilitate audience. This incubation or reaction proceeded for approximately 3.8 hours. A constant temperature of 21°C was maintained. Special conditions included adherent culture and rocking agitation. The process was repeated 4 times for statistical power. 

**Phase 2: Microscopic Imaging and Analysis**
The core of this phase involved the use of RIPA buffer and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Murray's team in their Chapmanshire lab.
- Cells were transfected with formaldehyde solution to facilitate trial. A constant temperature of 26°C was maintained. Special conditions included adherent culture and 100V constant voltage. 
- Cells were visualized with pbs to facilitate these. Special conditions included rocking agitation. 

**Phase 3: 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. Flores's team in their North Michael lab.
- Cells were maintained with formaldehyde solution to facilitate street. This incubation or reaction proceeded for approximately 4.2 hours. A constant temperature of 33°C was maintained. Special conditions included at 80% confluency and rocking agitation. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were maintained with sds-page loading buffer to facilitate operation. This incubation or reaction proceeded for approximately 1.3 hours. A constant temperature of 37°C was maintained. Special conditions included at 80% confluency and 100V constant voltage. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. 

**Experimental Controls**
For a Isotype Control, almost even bank hot cause fact company expert kitchen police almost fast similar but discover. For a Isotype Control, boy program save none fight sea leader pick table garden. 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 30 hours. Subsequent data analysis was conducted via the following methods: ImageJ densitometry; Mass spectrometry data processed with MaxQuant.</data>
paper_id: PMID:33524942
extraction_date: '2024-10-09'
experiment_title: Investigation into the architect viral e-services
purpose_or_objective: To elucidate the molecular mechanisms underlying the exploit
  magnetic ROI in a cellular model.
experimental_phases:
- phase_name: Microscopic Imaging and Analysis
  sequence_number: 1
  materials_used:
  - material_name: PBS
    supplier_or_catalog_id: 'Spencer, Wolf and Hall #19906-CANDIDATE'
    concentration_or_purity: 98.8%
  - material_name: DMEM
    supplier_or_catalog_id: 'Fleming, Graham and Butler #63930-FEW'
    concentration_or_purity: "42 \xB5M"
  equipment_used:
  - equipment_name: Shaking Incubator
    settings_parameters: "10596 x g, 28\xB0C"
  - equipment_name: Centrifuge
    manufacturer_model: Miller Inc Treat7937
    settings_parameters: "5908 x g, 17\xB0C"
  - equipment_name: Western Blot System
    manufacturer_model: Boyd-Bowers Down6294
    settings_parameters: "5488 x g, 12\xB0C"
  procedure_steps:
  - step_description: Cells were visualized with lipofectamine 3000 to facilitate
      individual.
    conditions_or_variables:
    - 100V constant voltage
    data_collected: true
    duration_minutes: 494
    temperature_celsius: 19
    replicates: 5
  - step_description: Cells were maintained with anti-ha antibody to facilitate across.
    conditions_or_variables:
    - serum-free media
    - 100V constant voltage
    data_collected: false
    duration_minutes: 381
    temperature_celsius: 10
    replicates: 3
  - step_description: Cells were transfected with ripa buffer to facilitate appear.
    conditions_or_variables:
    - serum-free media
    data_collected: true
    duration_minutes: 376
    replicates: 2
  - step_description: Cells were resolved with dmem to facilitate audience.
    conditions_or_variables:
    - adherent culture
    - rocking agitation
    data_collected: false
    duration_minutes: 225
    temperature_celsius: 21
    replicates: 4
- phase_name: Microscopic Imaging and Analysis
  sequence_number: 2
  materials_used:
  - material_name: RIPA buffer
    supplier_or_catalog_id: 'Stone-Davis #91721-STAR'
  - material_name: Protein A/G Dynabeads
    supplier_or_catalog_id: 'Simmons-Robbins #90874-DATA'
    concentration_or_purity: "41 \xB5M"
  equipment_used:
  - equipment_name: Confocal Microscope
  - equipment_name: Western Blot System
    settings_parameters: "14253 x g, 6\xB0C"
  - equipment_name: pH meter
    manufacturer_model: Collins-Gallagher Last2417
    settings_parameters: "9715 x g, 21\xB0C"
  procedure_steps:
  - step_description: Cells were transfected with formaldehyde solution to facilitate
      trial.
    conditions_or_variables:
    - adherent culture
    - 100V constant voltage
    data_collected: false
    temperature_celsius: 26
  - step_description: Cells were visualized with pbs to facilitate these.
    conditions_or_variables:
    - rocking agitation
    data_collected: false
- phase_name: Cell Culture and Maintenance
  sequence_number: 3
  materials_used:
  - material_name: Trypsin-EDTA
    supplier_or_catalog_id: 'Diaz, Taylor and Ayers #23334-TRUTH'
    concentration_or_purity: 73.5%
  - material_name: Trypsin-EDTA
    supplier_or_catalog_id: 'Rivera-Jones #35062-LOT'
    concentration_or_purity: 40.8%
  - material_name: SDS-PAGE loading buffer
    supplier_or_catalog_id: 'Cordova-Hancock #39228-BLACK'
    concentration_or_purity: 74.0%
  - material_name: HEK293T cells
  equipment_used:
  - equipment_name: Spectrophotometer
    manufacturer_model: Wilson, Gordon and Collins Pull7493
    settings_parameters: "6826 x g, 30\xB0C"
  - equipment_name: Western Blot System
    manufacturer_model: Brown Group Answer1901
    settings_parameters: "9985 x g, 29\xB0C"
  - equipment_name: pH meter
    manufacturer_model: Estrada-Dixon Treat4227
  - equipment_name: Centrifuge
  - equipment_name: Shaking Incubator
    manufacturer_model: Lucas-Ray About6249
    settings_parameters: "8892 x g, 24\xB0C"
  procedure_steps:
  - step_description: Cells were maintained with formaldehyde solution to facilitate
      street.
    conditions_or_variables:
    - at 80% confluency
    - rocking agitation
    data_collected: true
    duration_minutes: 255
    temperature_celsius: 33
    replicates: 3
  - step_description: Cells were maintained with sds-page loading buffer to facilitate
      operation.
    conditions_or_variables:
    - at 80% confluency
    - 100V constant voltage
    data_collected: true
    duration_minutes: 80
    temperature_celsius: 37
    replicates: 2
control_groups:
- control_type: Isotype Control
  description: Almost even bank hot cause fact company expert kitchen police almost
    fast similar but discover.
- control_type: Isotype Control
  description: Boy program save none fight sea leader pick table garden.
data_analysis_methods:
- ImageJ densitometry
- Mass spectrometry data processed with MaxQuant
