8de64f5db2e46f7e2694996a6d7a082b4bbabdcb max Mon Nov 4 05:20:25 2019 -0800 track docs update for lovd, refs #24408 diff --git src/hg/makeDb/trackDb/human/lovdComp.html src/hg/makeDb/trackDb/human/lovdComp.html index d20719f..8652545 100644 --- src/hg/makeDb/trackDb/human/lovdComp.html +++ src/hg/makeDb/trackDb/human/lovdComp.html @@ -13,37 +13,43 @@ updating data.</p> <p><span style="font-weight: bold; color: #c70000;">DOWNLOADS:</span><br> LOVD databases are owned by their respective curators and are not available for download or mirroring by any third party without their permission. Batch queries on this track are only available via the UCSC Beacon API (see below). See also the <a href= "http://lovd.nl/2.0/index_list.php" target="_blank">LOVD web site</A> for a list of database installations and the respective curators. </p></div> <p> This track shows the genomic positions of all <b>public</b> entries in public installations of the Leiden Open Variation Database system (<a href="http://www.lovd.nl/3.0/home" target="_blank">LOVD</a>) and the effect of the variant, if annotated. -UCSC does not host any further information. To get details on a variant -(bibliographic reference, phenotype, disease, patient, etc.), follow the +Due to the copyright restrictions of the LOVD databases, UCSC is not allowed to +host any further information. To get details on a variant (bibliographic +reference, phenotype, disease, patient, etc.), follow the "Link to LOVD" to the central server at Leiden, which will then redirect you to the details page on the particular LOVD server reporting this variant. </p> <p> +Since Nov 2019, similar to the ClinVar track, the data is split into two subtracks, for variants with a length of +<= 100bp and >100bp, respectively. +</p> + +<p> LOVD is a flexible, freely-available tool for gene-centered collection and display of DNA variations. It is not a database itself, but rather a platform where curators store and analyze data. While the LOVD team and the biggest LOVD sites are run at the Leiden University Medical Center, LOVD installations and their curators are spread over the whole world. Most LOVD databases report at least some of their content back to Leiden to allow global cross-database search, which is, among others, exported to this UCSC Genome Browser track every month. </p> <p>A few LOVD databases are entirely missing from this track. Reasons include configuration issues and intentionally blocked data search. During the last check in June 2015, the following databases did not export any variants: http://www.ucl.ac.uk/ldlr/Current/, http://brca.iarc.fr/LOVD/, http://bioinf4.fcm.unicamp.br/LOVD/, http://vitigene.igib.res.in, http://fishmap2.igib.res.in/mirlovd/,