fa29b7e72d8fb2a9519bf14f1122feccfd79eca2 lrnassar Thu Jun 11 04:46:21 2026 -0700 Retire mastermind track by gating it to alpha and noting retirement on the varsInPubs description page. refs #37753 The Genomenon Mastermind track no longer updates and the provider asked us to take it down. Added release alpha to the mastermind subtrack so it stays on dev/sandbox but is removed from beta and public for both hg38 and hg19, and updated the varsInPubs.html bullet to note the track has been retired. diff --git src/hg/makeDb/trackDb/human/varsInPubs.html src/hg/makeDb/trackDb/human/varsInPubs.html index e834f0301eb..3f51d9ed10b 100644 --- src/hg/makeDb/trackDb/human/varsInPubs.html +++ src/hg/makeDb/trackDb/human/varsInPubs.html @@ -1,22 +1,21 @@ <H2>Description</H2> <p>The tracks that are listed here contain genetic variants and links to scientific publications that mention them.</p> <ul> -<li>The <b>Mastermind</b> track was created by Genomenon, a company that analyzes fulltext -of publications with their own proprietary software with an unknown false -positive rate.</li> +<li>The <b>Mastermind</b> track, created by Genomenon, has been retired at the +request of the data provider and is no longer updated or displayed.</li> <li>The <b><a target="_blank" href="https://varchat.engenome.com/">VarChat</a></b> track was created by enGenome and links to its proprietary software, VarChat, with an unknown false positive rate.</li> <li>The <b>AVADA</b> track was created in the Bejerano lab at Stanford by J. Birgmeier also on fulltext papers, using sophisticated machine learning methods and was evaluated to have a false positive rate of around 50% in their study.</li> <li>The <b>PubTator rsIDs</b> track was created using <a href="https://ftp.ncbi.nlm.nih.gov/pub/lu/PubTator3/">PubTator 3 data</a>.</li> <li>The <b>Varaico</b> tracks were created using literature mining in a fashion similar to AVADA. Coloring is a gradient between blue and red, and represent the number of publications per variant. See the <a href="https://varaico.com/">Varaico website</a> for more details.</li> </ul> </p><p> For additional information please click on the hyperlink of the respective track above.