We want your feedback! 

As previously announced, NCBI is improving the way that functional data are submitted to ClinVar and how they are represented in the XML format and on the website. We have started enhancing support for functional data and would like your feedback!  

What’s new? 

We have updated the GitHub repository with: 

• Updated submission templates  
• Updated XSDs and sample XML files  

Continue reading “Update! Improving the Representation of Functional Data in ClinVar” →

NCBI is improving the way that functional data are submitted to ClinVar and how they are represented in the XML format and on the website. Almost half of the variants in ClinVar are variants of uncertain significance (VUS). It’s unclear what clinical action to take for these variants, creating a challenge for clinicians. One potential way to resolve VUS is to develop functional assays to determine the effect the variant has on the gene product, at either the transcript or the protein level. While ClinVar can currently accept functional data, we are striving to make submission easier and more efficient and to make the data easier to find and use.   Continue reading “Coming Soon! Improving Representation of Functional Data in ClinVar” →

NCBI’s ClinVar is now accepting submissions for somatic variants classified for cancer. As recently announced, we updated the ClinVar website as part of our effort to better support the display of submitted somatic variation data.  

Access to somatic variation data is essential for understanding tumor biology and will help researchers advance cancer treatment. It also helps clinical cancer testing laboratories provide better patient reports. Make ClinVar as useful for somatic variants as it is for germline by contributing your data! To submit your data, use our new somatic spreadsheet template (SubmissionTemplateSomatic.xlsx) and follow these step-by-step instructions. Once your submission is prepared, you can go to the ClinVar Submission Portal to upload and send your file. See an example below.   Continue reading “Submit Your Somatic Variation Data to ClinVar” →

As previously announced, we updated the ClinVar website as part of our effort to better support the display of submitted somatic variation data. 

What changed? 

Continue reading “Enhancements to ClinVar Website Now Live” →

In order to support the inclusion of submitted somatic variation data, we are updating the ClinVar website. In early 2024, you will begin to see some changes.

What will change?

Variant (VCV) record pages will have an updated look and feel:

• Simpler layout with no tabs
• New sections will display somatic classifications
  • Summary section will be divided into germline classification and display the two types of classifications for somatic variants – somatic clinical impact and oncogenicity
  • Sections for conditions, submitted records, functional evidence, and citations will be provided for both germline and somatic classifications
  • A toggle will allow you to select and show just information pertaining to germline or somatic data 

Continue reading “Coming Soon! Updates to the ClinVar Website” →

Do you currently use or submit clinical variation data? NCBI now has a new mechanism to improve ClinVar data quality. Since ClinVar’s founding over 10 years ago, the amount of information in this free resource has expanded dramatically with submissions from research and clinical laboratories all over the world. Because of the large volume of data and the importance of data quality, we are working with ClinGen biocurators to address problematic records for variants that do not require the efforts of an expert panel. 

What’s new?

ClinVar and ClinGen have established a new process for ClinGen biocurators to review submitted records in ClinVar. A problematic record will be curated by ClinGen as a candidate to be flagged in ClinVar. We will notify relevant submitters giving them an opportunity to review and update their data. If the submitter does not provide an update, the problematic record will be flagged in ClinVar, so that it does not contribute to the overall classification. The record, however, will remain accessible in the database (Figure 1). This will reduce the number of variants with a conflict in the classification and improve the accuracy of the ClinVar dataset.   Continue reading “ClinVar Partners with ClinGen to Review & Curate Submitted Records” →