Page Comparison

Synapse helps organize and manage collections of research outputs. Learn how information is organized in Synapse.

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Studies will be organized in Synapse with a directory schema similar to this:

• Study_name/

  • Data/

    • Assay_a/

    • Assay_b/

  • Metadata/

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

    • Assay_*/

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 directory.

See general file naming recommendations from the Princeton U Library.

Study Name Conventions

MODEL-AD data and metadata are organized by site and studystudy names should be formatted as follows.

Study Documentation

Each study will need a Study Description, Methods Description, and Acknowledgment Statement. The Documentation Submission Form includes some templates for these documents and instructions about submitting the documents.

Study Description

MODEL-AD specific templates are being drafted and will be made available on Synapse (see Study, Acknowledgment, and Methods). Each study should be accompanied by a brief study description that includes the species, genetic background, a link to the Jax Datasheet (if available) or a description of how the animals were created.

Download the in-progress study description template.

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Methods Description

Each assessment assay should be accompanied by include a brief description with information about the assessment procedures, data generation and processingcollection, and analytical methods. This information is often described in the Materials and Methods section of a manuscript. This is a good opportunity to provide useful details that may not be included in the final manuscript. StatuscolourBluetitleTODO A methods description template will be made available here.

Issues to clarify include:

• File naming conventions

• Assay-specific examples. Need a list of most common assays.

  • RNA sequencing

  • Behavioral

  • Frailty

  • Open field

Acknowledgement Statement

Every MODEL-AD study should include the following acknowledgment:

The results published here are in whole or in part based on data obtained from the AD Knowledge Portal ( https://adknowledgeportal.synapse.org/ ). The IU/JAX/UCI MODEL-AD Center was established with funding from The National Institute on Aging (U54 AG054345-01 and AG054349). Aging studies are also supported by the Nathan Shock Center of Excellence in the Basic Biology of Aging (NIH P30 AG0380770).

Study Organization

MODEL-AD Studies will be organized in Synapse with a directory schema similar to this:

• Study_name/

  • Data/

    • Assay_Type_1/ (data from first assay)

    • Assay_Type_2/ (data from second assay)

  • Metadata/

  • Staging/ (data that has yet to be released)

    • Assay_Type_n/ (unreleased data from nth assay)

Best practices for naming data files

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