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  1. Contact the https://sagebionetworks.jira.com/servicedesk/customer/portal/12
    Send a request to the AD + EL Service Desk to help add data or generate a publication dataset with a DOI.

  2. Include MODEL-AD in the subject line

  3. You will need the following information:

    1. Grant Number

    2. Contact PI

  4. In order to configure the study in Synapse, please provide information about the following

    1. Requested Study Name (see conventions below)

    2. Assays performed (see list of AD Metadata Dictionary)

    3. Data type

    4. File format

    5. Quantity of files, individual, and specimens

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Study type

Naming Format

Number of Strains

Primary Screen

Site_PrimaryScreen

  • Jax.IU.Pitt_PrimaryScreen

  • UCI_PrimaryScreen

Many

Strain Validation

Site_StrainValidation

  • Jax.IU.Pitt_StrainValidation

  • UCI_StrainValidation

Many

Deep Phenotyping

Site_Model

  • Jax.IU.Pitt_APOE4_Trem2

  • UCI_5XFAD

Many

Pharmacokinetic

Site_Model_Drug

  • Jax.IU.Pitt_5XFAD_Verubecestat

One

Pilot Studies

  • Microbiome

  • Proteomics

  • Metabolomics

Site_StudyType_Pilot

Examples:

  • Jax.IU.Pitt.Proteomics_Metabolomics_Pilot

Many

Contributing Data Files to Synapse

Information about uploading and organizing data

Study Organization

File Structure

Studies are organized in Synapse with a directory schema similar to Study directories will be organized like this:

  • Study_Name/

    • Data/

      • Assay_a/

      • Assay_b/

      • Metadata/

    • Staging/ (Note: Files will initially be uploaded to staging locations)

      Assay_*/

      pre-release)

File naming

File names should be concise, descriptive, and unique across the entire study. We must be able to distinguish between each file as if there were all in one directorymust be unique and machine readable. Names can not include special characters. Furthermore, we recommend the names be concise and descriptive.

See general file naming recommendations from the Princeton U Library.

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