Page Comparison

Data Templates

All available data templates

Common Data Templates for MODEL-AD

• Immunofluorescence

  • abeta_molecular

  • immunofluorescence

  • pathology

• Long-term Potentiation

  • LTPIOCurve

  • LTPPPF

  • LTPSlopeExp

• Behavioral

Assay Description

Each data template should have a brief description (3-5 sentences) about the procedures for data collection. This information will be posted on the file wiki.

Data Dictionary

Each template should also include a definition of each variable name. This will include a list of each key-definition pair in a data dictionary worksheet.

Examples

• Immunoassay Templates

  • Pathology

    • Template mockup in development with UCI

    • General Description:

    • Key-Definition Pairs:

    • Link to the final template in Synapse:

  • Immunofluorescence

  • ABeta Molecular

  • Proinflammatory Molecular

Data Type

• File naming:

• Assay metadata template:

• Data template:

Data Types Collected at Sites

https://www.synapse.org/#!Synapse:syn24167530

This table includes a list of data type we anticipate from each MODEL-AD site. The Assay

Behavior Process

• Metadata

  • No metadata template

• Data

  • Elevated + maze data template (pending)

  • Frailty assessment data template (see stand-alone frailty assessment data dictionary)

  • Open field data template (see stand-alone open field data dictionary)

  • Rotarod data template

  • Spontaneous alternation data template

  • Wheel running data template

Clinical – Blood chemistry measurement

• Metadata

  • No metadata template.

• Data

  • Blood chemistry measurement data template

Electrophysiology – LTP

• Metadata

  • No metadata template.

• Data

  • No data template.

Gene Expression – mRNA counts (Nanostring)

• Metadata

  • Nanostring metadata template

• Data

  • No data template.  Provide raw files and processed file.

Gene Expression – RNAseq

• Metadata

  • RNAseq metadata template  

• Data

  • No data template.  Provide fastq files and counts only; do not include BAM files.

Imaging – Autorad

• Metadata

  • Autorad metadata template

• Data

  • No data template.

Imaging – MRI

• Metadata

  • MRI metadata template

• Data

  • No data template.

Imaging – PET

• Metadata

  • PET metadata template

• Data

  • No data template.

Immunoassay – Electrochemiluminescence

• Metadata

  • No metadata template

• Data

  • Proinflammatory data template

  • Abeta data template

Immunoassay – Immunofluorescence

• Metadata

  • No metadata template.

• Data

  • Immunofluorescence data template

Immunoassay – Western blot

• Metadata

  • No metadata template.

• Data

  • No data template.

Pharmacokinetic Study

• Metadata

  • No metadata template

• Data

  • No data template. 

  • Each set of output should be its own CSV file.  The header of each file should only be one row – values and their units should not be in separate cells.

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