+You can sign-up to get these announcements via our Genome-announce email list. We send around one short announcement email every two weeks.
Smaller software changes are not announced here. A summary of the three-weekly release changes can be found here. For the full list of our daily code changes head to our GitHub page. Lastly, see our credits page for acknowledgments of the data we host.
+ +
+We are happy to announce the release of new vertical highlight features for track hubs. These
+settings follow exactly the same syntax and functionality as the filter trackDb
+settings, except instead of items being excluded from the display, they are striped with a colored
+background to appear "highlighted" compared to the other items in the display.
+The full list of highlight trackDb settings is available on the
+trackDb definitions page.
+
+Please note that at this time only one higlight color is available per track, and if multiple +highlight settings are present on the same track, only items that pass ALL highlight settings will +highlighted.
++Examples: +
+highlight.score 300 ++
+In the example above, the highlight.score setting allows you to highlight items based
+on the value of the score field. Passing a value of 300 to the setting will highlight
+all items with a score of 300 or above.
+highlightText.name NM* ++
+The example above uses the highlightText setting which will apply a highlight on the
+field name. Using this setting, any items that begin with NM are
+highlighted.
+highlightColor #ff0000 ++
+In this final example, the highlightColor to set the default highlight color. With
+this setting, all highlight stripes will use the color red, #ff0000.
++ We are happy to announce the release of the enGenome VarChat track for the + hg38/GRCh38 + and hg19/GRCh37 human assemblies, + available in the Variants in Papers superTrack. + VarChat is an open platform that + leverages the power of generative artificial intelligence to support the genomic variant + interpretation process by searching the available scientific literature for each variant and + condensing it into a brief yet informative text. +
+ ++ The track shows how many papers the variant was observed in, its gene, its HGVS nomenclature, and + dbSNP rsID. Variants are color-coded based on the level of literature support, as shown in the + table below:
+| Color | +Level of literature support | +
|---|---|
| + | High: at least 25 papers mention the variant | +
| + | Medium: between 10 and 24 papers mention the variant | +
| + | Low: fewer than 10 papers mention the variant | +
+ We would like to thank VarChat for providing the data to UCSC. We would also like to thank Lou + Nassar, Max Haeussler, and Gerardo Perez for their efforts on this release.
+ + ++ We are pleased to announce the addition of AlphaMissense tracks to the hg38 and + hg19 reference genomes. AlphaMissense scores predict the pathogenicity of + missense variants for all possible single amino acid substitutions in the human + proteome. +
+ ++ To access these tracks on the Genome Browser, please visit their description + pages below and change the tracks' visibility: +
+ ++ To learn more about the AlphaMissense dataset, please see the + publication by Cheng et al. Science. 2023. +
+ ++ We would like to thank Google DeepMind for making the data available. We would also like to thank + Jeltje van Baren and Matthew Speir for their efforts on this release.
+We are excited to announce the release of the CIViC track for hg19/GRCh37 and hg38/GRCh38. The Clinical Interpretation of Variants in Cancer (CIViC) is an online database of clinically -relevant variant interpretations from expert- and crowd-sourced peer-reviewed literature, clinical +relevant variant interpretations from expert and crowd-sourced peer-reviewed literature, clinical trials, and some conference abstracts. The details page for a feature will list diseases and therapies that have been associated with a genomic variant. Visiting the CIViC page for a variant will allow browsing the Molecular Profiles associated with that variant, and in turn each Molecular Profile shows the Clinical Evidence and Assertions for various diseases and therapies.
This track reflects the monthly data summaries published by CIViC. The latest information is always available directly on the CIViC website or by its API.
We would like to thank the CIViC contributers and organizers for curating the database and for