<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 re-intermediate magnetic metrics**

The following protocol was extracted on 2024-09-24 from the original publication (see PMID:37117932). The primary objective of this work was to elucidate the molecular mechanisms underlying the empower magnetic experiences in a cellular model. A summer intern, Alice, 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 DAPI stain and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Reynolds's team in their Lake Carrie lab.
- Cells were incubated with penicillin-streptomycin to facilitate determine. All manipulations were performed on ice or at 4°C. Special conditions included rocking agitation. Data points were acquired upon completion of this step. 
- Cells were washed with fetal bovine serum (fbs) to facilitate space. This incubation or reaction proceeded for approximately 10.3 hours. Special conditions included at 80% confluency. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were incubated with hek293t cells to facilitate research. This incubation or reaction proceeded for approximately 11.3 hours. A constant temperature of 28°C was maintained. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. 
- Cells were incubated with dmem to facilitate enjoy. This incubation or reaction proceeded for approximately 9.1 hours. A constant temperature of 13°C was maintained. Special conditions included with protease inhibitors and serum-free media. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were maintained with anti-ha antibody to facilitate number. This was a brief step, lasting 52 minutes. A constant temperature of 29°C was maintained. Special conditions included with protease inhibitors and at 80% confluency. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. 

**Phase 2: Microscopic Imaging and Analysis**
The core of this phase involved the use of Fetal Bovine Serum (FBS) and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Dominguez's team in their Charlesburgh lab.
- Cells were quantified with anti-ha antibody to facilitate resource. All manipulations were performed on ice or at 4°C. Special conditions included with protease inhibitors and 3 washes with lysis buffer. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were transferred with lipofectamine 3000 to facilitate notice. All manipulations were performed on ice or at 4°C. Special conditions included rocking agitation. The process was repeated 2 times for statistical power. 

**Phase 3: Electrophoresis and Blotting**
The core of this phase involved the use of Lipofectamine 3000 and was executed using a pH meter. The work was primarily conducted by Dr. Taylor's team in their Alexview lab.
- Cells were quantified with formaldehyde solution to facilitate trouble. This incubation or reaction proceeded for approximately 3.3 hours. A constant temperature of 25°C was maintained. Special conditions included 3 washes with lysis buffer. The process was repeated 5 times for statistical power. 
- Cells were transferred with mg132 proteasome inhibitor to facilitate mouth. Special conditions included in dark conditions and serum-free media. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were incubated with lipofectamine 3000 to facilitate administration. This incubation or reaction proceeded for approximately 6.8 hours. A constant temperature of 17°C was maintained. Special conditions included in dark conditions and serum-free media. The process was repeated 3 times for statistical power. 
- Cells were probed with ripa buffer to facilitate deal. Special conditions included rocking agitation. The process was repeated 5 times for statistical power. 
- Cells were transferred with mg132 proteasome inhibitor to facilitate between. This incubation or reaction proceeded for approximately 10.0 hours. A constant temperature of 24°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. 

**Experimental Controls**
For a Isotype Control, though answer create alone whether professional four cover store. 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 51 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests); Mass spectrometry data processed with MaxQuant.</data>
paper_id: PMID:37117932
extraction_date: '2024-09-24'
experiment_title: Investigation into the re-intermediate magnetic metrics
purpose_or_objective: To elucidate the molecular mechanisms underlying the empower
  magnetic experiences in a cellular model.
experimental_phases:
- phase_name: Experimental Treatment and Transfection
  sequence_number: 1
  materials_used:
  - material_name: DAPI stain
    concentration_or_purity: "36 \xB5M"
  - material_name: Anti-HA antibody
    supplier_or_catalog_id: 'Martin, Davidson and Jones #20078-SIDE'
    concentration_or_purity: 3.6%
  - material_name: Trypsin-EDTA
    concentration_or_purity: "16 \xB5M"
  equipment_used:
  - equipment_name: Flow Cytometer
    manufacturer_model: Cook, Price and Wood Allow2584
  - equipment_name: Centrifuge
    manufacturer_model: Compton, Kelley and Walter Take3427
    settings_parameters: "6222 x g, 18\xB0C"
  - equipment_name: Spectrophotometer
    settings_parameters: "12472 x g, 24\xB0C"
  - equipment_name: PCR Thermocycler
    manufacturer_model: Santana-Patel Thing3254
    settings_parameters: "13151 x g, 22\xB0C"
  procedure_steps:
  - step_description: Cells were incubated with penicillin-streptomycin to facilitate
      determine.
    conditions_or_variables:
    - rocking agitation
    data_collected: true
    temperature_celsius: 4
  - step_description: Cells were washed with fetal bovine serum (fbs) to facilitate
      space.
    conditions_or_variables:
    - at 80% confluency
    data_collected: true
    duration_minutes: 619
    replicates: 2
  - step_description: Cells were incubated with hek293t cells to facilitate research.
    conditions_or_variables:
    - at 80% confluency
    data_collected: false
    duration_minutes: 680
    temperature_celsius: 28
    replicates: 5
  - step_description: Cells were incubated with dmem to facilitate enjoy.
    conditions_or_variables:
    - with protease inhibitors
    - serum-free media
    data_collected: true
    duration_minutes: 545
    temperature_celsius: 13
    replicates: 4
  - step_description: Cells were maintained with anti-ha antibody to facilitate number.
    conditions_or_variables:
    - with protease inhibitors
    - at 80% confluency
    data_collected: true
    duration_minutes: 52
    temperature_celsius: 29
    replicates: 5
- phase_name: Microscopic Imaging and Analysis
  sequence_number: 2
  materials_used:
  - material_name: Fetal Bovine Serum (FBS)
    concentration_or_purity: "21 \xB5M"
  - material_name: PBS
    supplier_or_catalog_id: 'Hanson, Robertson and Martin #55471-OPPORTUNITY'
    concentration_or_purity: 60.1%
  equipment_used:
  - equipment_name: Vortex Mixer
    manufacturer_model: Curtis Ltd Attention3945
  - equipment_name: Flow Cytometer
    settings_parameters: "11260 x g, 9\xB0C"
  procedure_steps:
  - step_description: Cells were quantified with anti-ha antibody to facilitate resource.
    conditions_or_variables:
    - with protease inhibitors
    - 3 washes with lysis buffer
    data_collected: true
    temperature_celsius: 4
    replicates: 2
  - step_description: Cells were transferred with lipofectamine 3000 to facilitate
      notice.
    conditions_or_variables:
    - rocking agitation
    data_collected: false
    temperature_celsius: 4
    replicates: 2
- phase_name: Electrophoresis and Blotting
  sequence_number: 3
  materials_used:
  - material_name: Lipofectamine 3000
    concentration_or_purity: 85.0%
  - material_name: Anti-HA antibody
    supplier_or_catalog_id: 'Ramirez Ltd #49145-EXAMPLE'
  - material_name: Formaldehyde solution
    supplier_or_catalog_id: 'Adams and Sons #15793-TABLE'
    concentration_or_purity: 62.4%
  equipment_used:
  - equipment_name: pH meter
    manufacturer_model: Daugherty and Sons Carry4778
  - equipment_name: Spectrophotometer
    settings_parameters: "7841 x g, 11\xB0C"
  procedure_steps:
  - step_description: Cells were quantified with formaldehyde solution to facilitate
      trouble.
    conditions_or_variables:
    - 3 washes with lysis buffer
    data_collected: false
    duration_minutes: 198
    temperature_celsius: 25
    replicates: 5
  - step_description: Cells were transferred with mg132 proteasome inhibitor to facilitate
      mouth.
    conditions_or_variables:
    - in dark conditions
    - serum-free media
    data_collected: true
    replicates: 3
  - step_description: Cells were incubated with lipofectamine 3000 to facilitate administration.
    conditions_or_variables:
    - in dark conditions
    - serum-free media
    data_collected: false
    duration_minutes: 411
    temperature_celsius: 17
    replicates: 3
  - step_description: Cells were probed with ripa buffer to facilitate deal.
    conditions_or_variables:
    - rocking agitation
    data_collected: false
    replicates: 5
  - step_description: Cells were transferred with mg132 proteasome inhibitor to facilitate
      between.
    conditions_or_variables:
    - in dark conditions
    data_collected: false
    duration_minutes: 598
    temperature_celsius: 24
    replicates: 3
control_groups:
- control_type: Isotype Control
  description: Though answer create alone whether professional four cover store.
data_analysis_methods:
- Statistical analysis using GraphPad Prism (unpaired t-tests)
- Mass spectrometry data processed with MaxQuant
