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Getting Started
To upload data, you’ll need to do the following:
Complete a brief quiz to become a Synapse certified user.
Become a member of the MODEL-AD Data Upload team.
If you have questions about any of these steps, or to request access to the MODEL-AD Data Upload team, please contact Sage’s AMP-AD Administration team.
Uploading Study Documentation
Study Description
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.
Assay Description
Each assay should be accompanied by a short description that includes specimen processing, data generation, and data processing, as applicable -- something akin to the Materials and Methods section of a manuscript.
These descriptions can be submitted via the Data Validator by selecting the ‘Documentation’ tab on the left side of the window. At present, you can’t see files after you’ve uploaded them. The data curation team will always look at file versions and date/time stamps and tak
Describe Mouse Model in MODEL-AD Tools Survey
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Email address for contact person
Grant number
Species
Model Common Name
Model URL (link to the stock number in the Jackson Lab database)
Report card URL (link to the research model in ALZFORUM AlzForum model: https://www.alzforum.org/research-models/ )
Model description (<500 characters)
Targeted Genes
Background strain
Type (Late Onset AD, Familial AD)
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MODEL-AD teams provide mouse model reports
MODEL-AD teams should must provide a mouse model report in PDF format. See example here [add link]Example reports for MODEL-AD are available here in Synapse.
Sage DCC uploads mouse model report
The Sage DCC will upload the mouse model card in Synapse to this mouse model report.For this information to be visible publicly, the DCC team report PDF into the Mouse Model Reports in Synapse.
Sage sets necessary sharing permissions
Since the mouse model reports do not include sensitive information or PII/PHI, they are eligible for anonymous viewing and download permissions in Synapse. The Sage Governance team is responsible for enabling sharing permissions for each file in Synapse.
To set permissions the DCC curator must:
Create a Jira ticket and assign to Director.
Once approved, the The director will assign Jira ticket will be assigned to the Sage governance Governance team who .
Governance will set permissions as needed . The permissions for each file must be set at the file level rather than folder level.
Sage team links mouse model report
Sage DCC uploads reports to [MouseModelReports](https://www.synapse.org/#!Synapse:syn25474060 )
Sage DCC requests necessary permissions
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Sage DCC updates file view with link to model report
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