2e3c89f43f3bb9d386178270200d0acce9fc8050 lrnassar Fri Nov 22 17:47:13 2024 -0800 Giving the UI link cronjob some love by fixing all the 301 redirects. These are the bulk of the items listed on the cron. No RM. diff --git src/hg/makeDb/trackDb/human/hgmd.html src/hg/makeDb/trackDb/human/hgmd.html index 00b6771..0ea077c 100644 --- src/hg/makeDb/trackDb/human/hgmd.html +++ src/hg/makeDb/trackDb/human/hgmd.html @@ -2,49 +2,49 @@ <div class="warn-note" style="border: 2px solid #9e5900; padding: 5px 20px; background-color: #ffe9cc;"> <p><span style="font-weight: bold; color: #c70000;">NOTE:</span><br> HGMD public is intended for use primarily by physicians and other professionals concerned with genetic disorders, by genetics researchers, and by advanced students in science and medicine. While the HGMD public database is open to all academic users, users seeking information about a personal medical or genetic condition are urged to consult with a qualified physician for diagnosis and for answers to personal questions.</p> <p><span style="font-weight: bold; color: #c70000;">DOWNLOADS:</span><br> As requested by Qiagen, this track is not available for download or mirroring but only for limited API queries, see below. </p></div> <p> This track shows the genomic positions of variants in the public version of the -Human Gene Mutation Database (<a href="http://www.hgmd.cf.ac.uk/ac/index.php" +Human Gene Mutation Database (<a href="https://www.hgmd.cf.ac.uk/ac/index.php" target="_blank">HGMD</a>). UCSC does not host any further information and provides only the coordinates of mutations. </p> <p> To get details on a mutation (bibliographic reference, phenotype, disease, nucleotide change, etc.), follow the "Link to HGMD" at the top of the details page. Mouse over to show the type of variant (substitution, insertion, deletion, regulatory or splice variant). For deletions, only start coordinates are shown as the end coordinates have not been provided by HGMD. Insertions are located between the two annotated nucleic acids. </p> <p> The HGMD public database is produced at Cardiff University, but is free only for academic use. Academic users can register for a free account at the -<a href="http://www.hgmd.cf.ac.uk/docs/register.html" target=_"blank">HGMD +<a href="https://www.hgmd.cf.ac.uk/docs/register.html" target=_"blank">HGMD User Registration</a> page. Download and commercial use requires a license for the <a href="https://www.qiagenbioinformatics.com/products/human-gene-mutation-database/" target="_blank">HGMD Professional</a> database, which also contains many mutations not yet added to the public version of HGMD public. The public version is usually 1-2 years behind the professional version. </p> <p>The HGMD database itself does not come with a mapping to genome coordinates, but there is a related product called "GenomeTrax" which includes HGMD in the UCSC Custom Track format. Contact Qiagen for more information.</p> <h2>Batch queries</h2> <p>Due to license restrictions, the HGMD data is not available for download or for batch queries in the Table Browser. However, it is available for programmatic access via the <a href="https://ga4gh.org/#/beacon">Global Alliance Beacon API</a>, a web service that accepts queries in the form (genome, chromosome, position, allele) and returns "true" or "false" depending on whether there is information about this allele in the database. For more details see our