UCSC Genome Browser

Two new variant-impact tracks from Illumina on the UCSC Genome Browser: PrimateAI-3D scores every coding missense variant (hg38/hg19); PromoterAI scores every non-coding substitution near transcription start sites (hg38). See our news for more: bit.ly/illuminaTracks

Check out our new NMD Escape tracks on hg38! They predict where premature stop codons escape nonsense-mediated decay. Useful for interpreting truncating variants under ACMG PVS1. Includes GENCODE+RefSeq rulesets + predictive scores. See our news for more: bit.ly/browserNMD

New "Tandem Repeat Variation" tracks on hg38. Browse STR/VNTR data from WebSTR, STRchive, TRExplorer, ToMMo, and 1000 Genomes ONT, plus gnomAD STR genotypes at 87 disease loci. Explore allele frequencies across diverse populations. Read more at: #041026" target="_blank" rel="nofollow noopener">genome.ucsc.edu/goldenPath/new…

New heatmap display mode for bigBed tracks in the UCSC Genome Browser! Visualize multi-sample quantitative data as color-coded grids directly in genomic context, great for variant effects, expression & methylation. See our docs & try it out: bit.ly/ucscGBheatmap

@zikun__yang Hello, Thank you for your question. At this time, we do not plan to add this track to T2T-CHM13v2.0. You may find our QuickLift feature helpful. QuickLift maps genome annotations to another assembly on demand. More details are available here: docs.google.com/document/d/1we…

@GenomeBrowser Is there any plan to add this track to T2T-CHM13v2.0? please🥺

We are excited to announce the release of the Human Methylation Atlas Summary and Signals tracks for hg38 and hg19. The tracks display genome-wide DNA methylation profiles across 39 primary human cell types from 205 healthy tissue samples. Learn more at bit.ly/humanMethylati…

The supertrack configuration page has new controls for track visibility. "Apply visibility" buttons set visibility across visible or all tracks, Hide/Dense/Squish/Pack/Full buttons replace dropdowns, folder icons indicate container tracks. More info: #031726" target="_blank" rel="nofollow noopener">genome.ucsc.edu/goldenPath/new…

We've added two gnomAD coverage tracks on human hg38: gnomAD v4 Exome Coverage — mean/median depth & sample % at 1X–100X thresholds across exome samples. gnomAD v3 Genome Coverage — same metrics for 71,702 whole-genome samples. Learn more at: #031326" target="_blank" rel="nofollow noopener">genome.ucsc.edu/goldenPath/new…

New Recent Genomes & Connected Hub Assemblies lists on the Gateway page, plus genome search across more tools. Recent Genomes also appears in the blue bar under Genomes. Species Tree now hidden by default (click “Show species tree” to view). More info at #022426" target="_blank" rel="nofollow noopener">genome.ucsc.edu/goldenPath/new…

@gzhao11 @tascya @bijeshgeorge3 @WashUGenetics @WashUNeurology @IGVFConsortium @AvrahamOshri @twang5 @YangEricLi @lidaof @LabPiao @Gabel_Lab @ccrugom @chengran2020

We are happy to announce our new public hub, VRMOD CRM for hg38/mm10. It shows experimentally defined, predicted, and epigenomically supported cis-regulatory elements across tissues & cell types: bit.ly/VRMOD_CRMs Thanks to Zhao Lab at WashU Medicine for creating this hub.

We are happy to announce the JASPAR 2026 tracks for hg38, mm39, danRer11, galGal6, dm6, ce11, ci3, and sacCer3, which represent genome-wide predicted binding sites for transcription factors with binding profiles in the JASPAR CORE collection. More info: bit.ly/JASPAR2026

A new Phased Variants container track for hg38 and hg19, and brings phased individual-level genotype data from: Human Diversity Genome Project, Simons Genome Diversity Project, gnomad's HGDP+1000 Genomes callset, and the Mexico Biobank. Learn more at: bit.ly/4rxS60Q

We are happy to announce the recount3 tracks for hg38 and mm10: uniformly processed RNA-seq data from multiple studies, featuring intron data, split read counts, and splice junction motifs for cross-study comparisons and meta-analyses. Learn more at: bit.ly/recount3_track

We are excited to introduce Hub Space, a new hosting service that enables users to upload and visualize track hub files directly on the UCSC Genome Browser without relying on third-party hosting services such as Dropbox, Google Drive, or AWS. Learn more: bit.ly/3NTZBkq

We are excited to announce that the Genome Browser now includes a dynamic track group that automatically displays all currently visible tracks in one convenient location. The group has more than 32 tracks available for a genome assembly. Read more here: bit.ly/4qj1jt7

These data display regions identified by biochemical signatures predicted to regulate gene expression as promoters, enhancers, or other regulatory elements. We would like to thank @ENCODE_NIH, @ZhipingWeng, and @MooreJillE for their work in producing and displaying these data.

We are proud to announce a new ENCODE Registry of cCREs (candidate Cis-Regulatory Elements) track for hg38 as described in Moore et al., Nature 2026. See our news for more: bit.ly/ucscENCODE4cCR…

We recently added Neanderthal and Denisova variant tracks for GRCh38/hg38. Thanks to the Archaic Sequence Hub (arcseqhub.com/plot/-1/) for compiling the data and making it available. View the data on the Genome Browser: bit.ly/ancientHominids.

We are pleased to announce the release of the EVA SNP Release 8 tracks, now available for 41 assemblies and covering 945 million variants. Learn more at #121925" target="_blank" rel="nofollow noopener">genome.ucsc.edu/goldenPath/new…