Publishing to ClinVar

VCI users curating as part of any affiliation can use the "ClinVar Submission" buttons on their approved interpretation snapshot to generate data that can be submitted to ClinVar via spreadsheet.

The Batch Submission option was introduced in November 2022.

Batch submission process

Click on Add to Current Batch to add a variant to a batch

Note, if this is the first variant added, a new batch will be created and named with current month and year

The batch name will be added to the Publishing Status for the variant.

Click on the Batch name to view the current and closed ClinVar Submission Batches for the Affiliation.

Once all desired variants have been added to the batch, click Generate Submission Data, which opens the ClinVar Submission Data window.

Click Generate. Once the data populates, click Copy (to clipboard).

The data can now be pasted into a spreadsheet and submitted in the ClinVar submission portal.

Once the data has been submitted to ClinVar, click the Edit button to open the Edit Current Batch window.

Change the Status from "In Progress" to "Submitted to ClinVar." The Date Submitted field will now be available to edit and a Warning will appear.

You must type "Confirm" into the text box to proceed. Then click the Save button to close the batch.

The submission batch will now be listed under Closed Batches on the affiliation's ClinVar Submission Batches page.

The Publishing Status of all variants in the batch will be updated to "Closed Batches."