Documentation for how to provide information about new strains
This article describes the process for how the MODEL-AD teams submit new strain information. This information will be posted in experimental tools on the AD Knowledge Portal’s Data Coordination Center (AD-DCC).
Step 1: MODEL-AD submits information about the new strain
Strain Information to include
Each strain should include the key details listed below. The model details should match the information on the Jax strain webpage, and any discrepancies will need to be resolved.
Email address for the person submitting the survey
MODEL-AD Grant number
Species
Model Common Name as used in the strain list on the MODEL-AD Strain Table
Model URL (link Jax strain page – ex: https://www.jax.org/strain/031988 )
Report card URL (link AlzForum strain, if available – ex: https://www.alzforum.org/research-models/3xtg )
Model description (<500 characters)
A list of genes the model is targeting
Background strain
Type (LOAD – Late Onset Alzheimer’s Disease, FAD – Familial Alzheimer’s Disease)
MODEL-AD teams provide mouse model reports
MODEL-AD teams should provide a mouse model report in PDF format.
The MODEL-AD data liaison should provide the AD-DCC with this report somehow and at some interval….
Test and see if Google forms allows for attachments. We could capture the report at the same time.
The Sage DCC will add the mouse model report into the Mouse Model Reports in Synapse.
Step 2: AD-DCC Adds new strain to the AD Knowledge Portal
Create Model Entity in Synapse
The AD-DCC creates a new file entity in Synapse’s Experimental Tools for the strain. The Synapse entity is named after the Model Common Name and will link to the Jax lab strain page.
Navigate to AD Knowledge Portal’s Experimental Tools page
Click Folder Tools > Add New Folder
Name the folder with the Model Common Name
Add a URL to the Jackson labs strain (eg, https://www.jax.org/strain/123456)
Annotate Model
The AD-DCC annotates the model entity with the content provided in the survey.
Navigate to the Experimental Tools file view
Annotate new strains by editing the query results or by downloading a CSV
Link to Experimental Tool
The AD-DCC creates a link to any study that includes data from the strain.
AD-DCC 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.
Sage DCC updates file view with link to model report
Sage DCC updates file view with a link to the mouse model report in the Experimental Tools
Step 3: Creating release notes and advertising new strains
The AD-DCC writes release notes to inform the community when a new strain is available. The release notes are posted in News stories and link to the experimental tool in the AD Knowledge portal. Additionally,
Past release notes are available in this document.
Zoe posts release notes in news section of portal.
When a new strain is available the AD-DCC will write a feature story about model in newsletter (**Discuss this option w/ MODEL-AD teams**)
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