Entries in the ClinVar short variants track are shaded by clinical annotation: red for pathogenic, dark grey for uncertain significance or not provided and green for benign.
The score of the variants is the number of "stars" in ClinVar. On the track configuration page (above), you can filter the track to show only variants with more than a certain number of stars. For more information on the star rating, see the ClinVar documentation.
+ClinVar publishes a new release once per month and this track is updated automatically 5-6 days +later. You can find the previous versions of the track organized by month on our +downloads server in the +archive +directory. To access one of these previous versions, paste the URL to one of +the older files into our "Custom tracks" box.
The raw data can be explored interactively with the Table Browser or the Data Integrator.
For automated download and analysis, the genome annotation is stored in a bigBed file that can be downloaded from our download server. The files for this track are called clinVarMain.bb and clinVarCnv.bb. Individual regions or the whole genome annotation can be obtained using our tool bigBedToBed which can be compiled from the source code or downloaded as a precompiled binary for your system. Instructions for downloading source code and binaries can be found here. The tool can also be used to obtain only features within a given range, e.g. bigBedToBed http://hgdownload.soe.ucsc.edu/gbdb/hg19/bbi/clinvar/clinvarMain.bb -chrom=chr21 -start=0 -end=100000000 stdout
--You can find previous versions of the ClinVar tracks organized by month on our -download server here. -
-ClinVar files were reformatted at UCSC to the bigBed format. The data is updated every month, one week after the ClinVar release date. The program that performs the update is available on Github.
Thanks to NCBI for making the ClinVar data available on their FTP site as a tab-separated file.