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Documentation for how to provide information about new strains
This article This page describes the process procedure for how the MODEL-AD teams submit new strain information. This information should submit mouse models to the DCC. The mouse models will be posted in on the experimental tools page on the AD Knowledge Portal’s Data Coordination Center (AD-DCC)Portal.
Step 1:
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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.
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Submit Mouse Model details
Please provide information about the mouse model in this MODEL-AD Tools survey. The strain information should match that on the JAX stock page.
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Email address of the person submitting the survey
MODEL-AD Grant number
Species
Model Common Name as used in the strain list on the MODEL-AD Strain Tablesystem name (see names in the AD Metadata Dictionary)
Model URL (link to Jax strain stock page – (ex: https://www.jax.org/strain/031988)
Report card URL (link AlzForum strain, if available – to AlzForum research model (ex: https://www.alzforum.org/research-models/3xtg)
Model description (<500 characters)
A list List of genes the model is targeting
Background strain (eg, C57BL/6J)
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.
At the bottom of the survey, you can upload a PDF of the Mouse Model Report. The AD-DCC will add it to the Mouse Model Reports in Synapse.
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Step 2:
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Model added to the
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Portal
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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 System 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
. This entity will be annotated with the information provided, including a link to the JAX stock page, and a list of studies that include data from the model.
The DCC will add the PDF report to the Mouse Model Reports in Synapse. 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
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Step 3:
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Community Update
The AD-DCC writes release notes to inform DCC informs the community when a new strain model is available . The release notes are posted in News stories and link to the experimental tool on the Portal 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**)Portal News. See past Public Data Release Notes.