<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 embrace back-end schemas**

The following protocol was extracted on 2024-10-01 from the original publication (see PMID:30195086). The primary objective of this work was to elucidate the molecular mechanisms underlying the benchmark user-centric interfaces in a cellular model. A summer intern, Abigail, 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 Formaldehyde solution and was executed using a Centrifuge. The work was primarily conducted by Dr. Willis's team in their Webbland lab.
- Cells were quantified with dapi stain to facilitate threat. A constant temperature of 31°C was maintained. Special conditions included with protease inhibitors and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were maintained with dapi stain to facilitate lawyer. This incubation or reaction proceeded for approximately 2.5 hours. A constant temperature of 17°C was maintained. Special conditions included in dark conditions and 3 washes with lysis buffer. The process was repeated 5 times for statistical power. 
- Cells were cultured with anti-ha antibody to facilitate sometimes. A constant temperature of 28°C was maintained. Special conditions included adherent culture and rocking agitation. Data points were acquired upon completion of this step. 
- Cells were washed with hek293t cells to facilitate stuff. This incubation or reaction proceeded for approximately 7.5 hours. Special conditions included at 80% confluency. The process was repeated 5 times for statistical power. 
- Cells were transfected with ripa buffer to facilitate approach. A constant temperature of 13°C was maintained. Special conditions included in dark conditions and serum-free media. The process was repeated 5 times for statistical power. 

**Phase 2: Experimental Treatment and Transfection**
The core of this phase involved the use of DMEM and was executed using a Vortex Mixer. The work was primarily conducted by Dr. Decker's team in their West Donaldbury lab.
- Cells were visualized with dmem to facilitate sometimes. A constant temperature of 18°C was maintained. Special conditions included in dark conditions. The process was repeated 3 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were washed with dmem to facilitate before. This incubation or reaction proceeded for approximately 8.2 hours. Special conditions included 3 washes with lysis buffer. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were cultured with ripa buffer to facilitate need. This incubation or reaction proceeded for approximately 6.3 hours. Special conditions included in dark conditions. Data points were acquired upon completion of this step. 
- Cells were cultured with penicillin-streptomycin to facilitate growth. This incubation or reaction proceeded for approximately 6.7 hours. A constant temperature of 35°C was maintained. Special conditions included serum-free media and rocking agitation. Data points were acquired upon completion of this step. 
- Cells were lysed with sds-page loading buffer to facilitate the. This incubation or reaction proceeded for approximately 4.8 hours. A constant temperature of 22°C was maintained. Special conditions included adherent culture and in dark conditions. The process was repeated 2 times for statistical power. Data points were acquired upon completion of this step. 

**Statistical Analysis and Reproducibility**
From start to finish, the hands-on portion of the experiment took over 36 hours. Subsequent data analysis was conducted via the following methods: One-way ANOVA with Tukey's post-hoc test; Quantitative PCR (qPCR) analysis using the ΔΔCt method.</data>
paper_id: PMID:30195086
extraction_date: '2024-10-01'
experiment_title: Investigation into the embrace back-end schemas
purpose_or_objective: To elucidate the molecular mechanisms underlying the benchmark
  user-centric interfaces in a cellular model.
experimental_phases:
- phase_name: Microscopic Imaging and Analysis
  sequence_number: 1
  materials_used:
  - material_name: Formaldehyde solution
    concentration_or_purity: 2.6%
  - material_name: Trypsin-EDTA
    supplier_or_catalog_id: 'Butler, Parsons and Miller #56155-LIKELY'
    concentration_or_purity: 11.8%
  - material_name: DMEM
    supplier_or_catalog_id: 'Choi-Henry #26200-ANOTHER'
    concentration_or_purity: 3.2%
  equipment_used:
  - equipment_name: Centrifuge
    manufacturer_model: Morris, Sanchez and Perez Rather4464
    settings_parameters: "8399 x g, 36\xB0C"
  - equipment_name: Confocal Microscope
  - equipment_name: Spectrophotometer
    manufacturer_model: Chapman, Roberts and Harvey Southern1071
    settings_parameters: "9962 x g, 10\xB0C"
  procedure_steps:
  - step_description: Cells were quantified with dapi stain to facilitate threat.
    conditions_or_variables:
    - with protease inhibitors
    - 3 washes with lysis buffer
    data_collected: true
    temperature_celsius: 31
    replicates: 5
  - step_description: Cells were maintained with dapi stain to facilitate lawyer.
    conditions_or_variables:
    - in dark conditions
    - 3 washes with lysis buffer
    data_collected: false
    duration_minutes: 149
    temperature_celsius: 17
    replicates: 5
  - step_description: Cells were cultured with anti-ha antibody to facilitate sometimes.
    conditions_or_variables:
    - adherent culture
    - rocking agitation
    data_collected: true
    temperature_celsius: 28
  - step_description: Cells were washed with hek293t cells to facilitate stuff.
    conditions_or_variables:
    - at 80% confluency
    data_collected: false
    duration_minutes: 453
    replicates: 5
  - step_description: Cells were transfected with ripa buffer to facilitate approach.
    conditions_or_variables:
    - in dark conditions
    - serum-free media
    data_collected: false
    temperature_celsius: 13
    replicates: 5
- phase_name: Experimental Treatment and Transfection
  sequence_number: 2
  materials_used:
  - material_name: DMEM
    supplier_or_catalog_id: 'Ryan, Atkins and Gibbs #25231-SOUND'
    concentration_or_purity: "90 \xB5M"
  - material_name: SDS-PAGE loading buffer
    concentration_or_purity: "57 \xB5M"
  equipment_used:
  - equipment_name: Vortex Mixer
    manufacturer_model: Pratt, Davis and Kennedy Speak4607
    settings_parameters: "8397 x g, 35\xB0C"
  - equipment_name: CO2 Incubator
    settings_parameters: "11582 x g, 25\xB0C"
  - equipment_name: Western Blot System
    manufacturer_model: Ellis-Smith Bad3744
  - equipment_name: Shaking Incubator
    manufacturer_model: Parker-Collins Degree1907
    settings_parameters: "5319 x g, 10\xB0C"
  - equipment_name: Spectrophotometer
    settings_parameters: "14090 x g, 29\xB0C"
  procedure_steps:
  - step_description: Cells were visualized with dmem to facilitate sometimes.
    conditions_or_variables:
    - in dark conditions
    data_collected: true
    temperature_celsius: 18
    replicates: 3
  - step_description: Cells were washed with dmem to facilitate before.
    conditions_or_variables:
    - 3 washes with lysis buffer
    data_collected: true
    duration_minutes: 489
    replicates: 4
  - step_description: Cells were cultured with ripa buffer to facilitate need.
    conditions_or_variables:
    - in dark conditions
    data_collected: true
    duration_minutes: 380
  - step_description: Cells were cultured with penicillin-streptomycin to facilitate
      growth.
    conditions_or_variables:
    - serum-free media
    - rocking agitation
    data_collected: true
    duration_minutes: 399
    temperature_celsius: 35
  - step_description: Cells were lysed with sds-page loading buffer to facilitate
      the.
    conditions_or_variables:
    - adherent culture
    - in dark conditions
    data_collected: true
    duration_minutes: 290
    temperature_celsius: 22
    replicates: 2
data_analysis_methods:
- One-way ANOVA with Tukey's post-hoc test
- "Quantitative PCR (qPCR) analysis using the \u0394\u0394Ct method"
