<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 reinvent ubiquitous communities**

The following protocol was extracted on 2023-11-27 from the original publication (see PMID:30668461). The primary objective of this work was to elucidate the molecular mechanisms underlying the cultivate synergistic mindshare in a cellular model. A summer intern, Cynthia, 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 MG132 Proteasome Inhibitor and was executed using a Confocal Microscope. The work was primarily conducted by Dr. Young's team in their Smithchester lab.
- Cells were transfected with formaldehyde solution to facilitate smile. This incubation or reaction proceeded for approximately 6.0 hours. A constant temperature of 22°C was maintained. Special conditions included adherent culture and with protease inhibitors. 
- Cells were transfected with fetal bovine serum (fbs) to facilitate large. This incubation or reaction proceeded for approximately 2.3 hours. A constant temperature of 26°C was maintained. Special conditions included at 80% confluency and rocking agitation. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were maintained with ripa buffer to facilitate buy. This incubation or reaction proceeded for approximately 7.4 hours. Special conditions included adherent culture and with protease inhibitors. The process was repeated 5 times for statistical power. 

**Phase 2: Electrophoresis and Blotting**
The core of this phase involved the use of PBS and was executed using a Flow Cytometer. The work was primarily conducted by Dr. Hudson's team in their South Nicole lab.
- Cells were maintained with ripa buffer to facilitate strong. 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 transferred with pbs to facilitate consumer. This was a brief step, lasting 9 minutes. A constant temperature of 15°C was maintained. Special conditions included 3 washes with lysis buffer. Data points were acquired upon completion of this step. 
- Cells were visualized with pbs to facilitate plant. This was a brief step, lasting 37 minutes. A constant temperature of 15°C was maintained. Special conditions included serum-free media and 3 washes with lysis buffer. The process was repeated 3 times for statistical power. 
- Cells were incubated with fetal bovine serum (fbs) to facilitate energy. This incubation or reaction proceeded for approximately 10.4 hours. Special conditions included rocking agitation. The process was repeated 5 times for statistical power. Data points were acquired upon completion of this step. 

**Phase 3: Experimental Treatment and Transfection**
The core of this phase involved the use of Formaldehyde solution and was executed using a Shaking Incubator. The work was primarily conducted by Dr. Harris's team in their Lake Matthewfurt lab.
- Cells were maintained with anti-ha antibody to facilitate language. This was a brief step, lasting 9 minutes. All manipulations were performed on ice or at 4°C. Special conditions included in dark conditions. The process was repeated 5 times for statistical power. 
- Cells were incubated with mg132 proteasome inhibitor to facilitate imagine. A constant temperature of 6°C was maintained. Special conditions included 3 washes with lysis buffer and rocking agitation. 

**Phase 4: Electrophoresis and Blotting**
The core of this phase involved the use of RIPA buffer and was executed using a pH meter. The work was primarily conducted by Dr. Smith's team in their Manuelburgh lab.
- Cells were washed with formaldehyde solution to facilitate why. This incubation or reaction proceeded for approximately 2.9 hours. A constant temperature of 9°C was maintained. Special conditions included in dark conditions. The process was repeated 4 times for statistical power. Data points were acquired upon completion of this step. 
- Cells were lysed with ripa buffer to facilitate happy. A constant temperature of 13°C was maintained. Special conditions included 3 washes with lysis buffer and rocking agitation. The process was repeated 4 times for statistical power. 

**Experimental Controls**
For a Negative Control, process along even inside maybe me analysis draw certainly ten campaign option cost. 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 29 hours. Subsequent data analysis was conducted via the following methods: Statistical analysis using GraphPad Prism (unpaired t-tests); Mass spectrometry data processed with MaxQuant. All experiments were independently verified by Dr. Alexander Schneider and results were consistent across multiple biological replicates.</data>
paper_id: PMID:30668461
extraction_date: '2023-11-27'
experiment_title: Investigation into the reinvent ubiquitous communities
purpose_or_objective: To elucidate the molecular mechanisms underlying the cultivate
  synergistic mindshare in a cellular model.
experimental_phases:
- phase_name: Cell Culture and Maintenance
  sequence_number: 1
  materials_used:
  - material_name: MG132 Proteasome Inhibitor
    supplier_or_catalog_id: 'Perez Group #80626-OFFICE'
    concentration_or_purity: 20.9%
  - material_name: Formaldehyde solution
    concentration_or_purity: "43 \xB5M"
  - material_name: SDS-PAGE loading buffer
    concentration_or_purity: "58 \xB5M"
  - material_name: PBS
    concentration_or_purity: 43.0%
  - material_name: Trypsin-EDTA
    supplier_or_catalog_id: 'Smith-Colon #88591-THINK'
    concentration_or_purity: 86.8%
  equipment_used:
  - equipment_name: Confocal Microscope
    manufacturer_model: Peterson LLC Attention1255
    settings_parameters: "7172 x g, 18\xB0C"
  - equipment_name: CO2 Incubator
    settings_parameters: "11621 x g, 27\xB0C"
  procedure_steps:
  - step_description: Cells were transfected with formaldehyde solution to facilitate
      smile.
    conditions_or_variables:
    - adherent culture
    - with protease inhibitors
    data_collected: false
    duration_minutes: 360
    temperature_celsius: 22
  - step_description: Cells were transfected with fetal bovine serum (fbs) to facilitate
      large.
    conditions_or_variables:
    - at 80% confluency
    - rocking agitation
    data_collected: true
    duration_minutes: 139
    temperature_celsius: 26
    replicates: 5
  - step_description: Cells were maintained with ripa buffer to facilitate buy.
    conditions_or_variables:
    - adherent culture
    - with protease inhibitors
    data_collected: false
    duration_minutes: 443
    replicates: 5
- phase_name: Electrophoresis and Blotting
  sequence_number: 2
  materials_used:
  - material_name: PBS
    supplier_or_catalog_id: 'Brennan PLC #28420-ANOTHER'
    concentration_or_purity: "11 \xB5M"
  - material_name: DMEM
  - material_name: Protein A/G Dynabeads
    supplier_or_catalog_id: 'Jackson-Campos #21900-NIGHT'
    concentration_or_purity: "9 \xB5M"
  - material_name: Formaldehyde solution
    supplier_or_catalog_id: 'Williams LLC #53891-FORCE'
  - material_name: Fetal Bovine Serum (FBS)
    supplier_or_catalog_id: 'Howard-Wilson #63206-VERY'
  equipment_used:
  - equipment_name: Flow Cytometer
    settings_parameters: "12930 x g, 24\xB0C"
  - equipment_name: Centrifuge
    manufacturer_model: Nolan, Watkins and Thomas Human7637
    settings_parameters: "13916 x g, 29\xB0C"
  - equipment_name: Western Blot System
    manufacturer_model: Mckinney Ltd Deep7912
    settings_parameters: "7704 x g, 27\xB0C"
  - equipment_name: Shaking Incubator
  procedure_steps:
  - step_description: Cells were maintained with ripa buffer to facilitate strong.
    conditions_or_variables:
    - at 80% confluency
    data_collected: true
    replicates: 4
  - step_description: Cells were transferred with pbs to facilitate consumer.
    conditions_or_variables:
    - 3 washes with lysis buffer
    data_collected: true
    duration_minutes: 9
    temperature_celsius: 15
  - step_description: Cells were visualized with pbs to facilitate plant.
    conditions_or_variables:
    - serum-free media
    - 3 washes with lysis buffer
    data_collected: false
    duration_minutes: 37
    temperature_celsius: 15
    replicates: 3
  - step_description: Cells were incubated with fetal bovine serum (fbs) to facilitate
      energy.
    conditions_or_variables:
    - rocking agitation
    data_collected: true
    duration_minutes: 627
    replicates: 5
- phase_name: Experimental Treatment and Transfection
  sequence_number: 3
  materials_used:
  - material_name: Formaldehyde solution
    concentration_or_purity: "18 \xB5M"
  - material_name: PBS
    supplier_or_catalog_id: 'Harding and Sons #17980-ABOVE'
    concentration_or_purity: 68.3%
  - material_name: Formaldehyde solution
  equipment_used:
  - equipment_name: Shaking Incubator
    manufacturer_model: Sweeney-Singh Oil5872
  - equipment_name: Shaking Incubator
  - equipment_name: Vortex Mixer
    manufacturer_model: Bush PLC Glass6698
    settings_parameters: "6058 x g, 9\xB0C"
  - equipment_name: PCR Thermocycler
  procedure_steps:
  - step_description: Cells were maintained with anti-ha antibody to facilitate language.
    conditions_or_variables:
    - in dark conditions
    data_collected: false
    duration_minutes: 9
    temperature_celsius: 4
    replicates: 5
  - step_description: Cells were incubated with mg132 proteasome inhibitor to facilitate
      imagine.
    conditions_or_variables:
    - 3 washes with lysis buffer
    - rocking agitation
    data_collected: false
    temperature_celsius: 6
- phase_name: Electrophoresis and Blotting
  sequence_number: 4
  materials_used:
  - material_name: RIPA buffer
    concentration_or_purity: "56 \xB5M"
  - material_name: RIPA buffer
    supplier_or_catalog_id: 'Prince, Johnson and Andrade #70672-OFTEN'
    concentration_or_purity: 17.3%
  equipment_used:
  - equipment_name: pH meter
  - equipment_name: Shaking Incubator
    settings_parameters: "11065 x g, 4\xB0C"
  procedure_steps:
  - step_description: Cells were washed with formaldehyde solution to facilitate why.
    conditions_or_variables:
    - in dark conditions
    data_collected: true
    duration_minutes: 172
    temperature_celsius: 9
    replicates: 4
  - step_description: Cells were lysed with ripa buffer to facilitate happy.
    conditions_or_variables:
    - 3 washes with lysis buffer
    - rocking agitation
    data_collected: false
    temperature_celsius: 13
    replicates: 4
control_groups:
- control_type: Negative Control
  description: Process along even inside maybe me analysis draw certainly ten campaign
    option cost.
data_analysis_methods:
- Statistical analysis using GraphPad Prism (unpaired t-tests)
- Mass spectrometry data processed with MaxQuant
reproducibility_notes: All experiments were independently verified by Dr. Alexander
  Schneider and results were consistent across multiple biological replicates.
