UCSC Genome Browser

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: https://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: https://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: https://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 Zhiping Weng, and Jill Moore 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/ucscENCODE4cCREs

We recently added Neanderthal and Denisova variant tracks for GRCh38/hg38. Thanks to the Archaic Sequence Hub (http://www.arcseqhub...) 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 http://genome.ucsc.e...

The new public hub from @GHFC_lab displays genes connected with autism and neurodevelopmental disorders. It additionally displays variants from diagnosed autistic individuals and their undiagnosed families. View it on the Genome Browser here: https://bit.ly/4pUpC1e.

We recently added a public track hub of "cancer effect size" across 20 TCGA cancer cohorts. Thank you to @jeffreytownsend.bsky.social and his lab at Yale University for providing the data. View it on the Genome Browser here: https://bit.ly/496Cx92.

We would love to hear your feedback on QuickLift and welcome any suggestions you may have for improving the QuickLift guide. Your input will help us refine QuickLift and shape the official help page. Please feel free to write to us at genome-www@soe.ucsc.edu.

QuickLift_guide BETA: QuickLift is in beta testing, which means it is not polished and will contain bugs. See the Bugs section at the end of this page for known issues. If you would like to report a bug or have any questions, please contact us at genome-www@soe.ucsc.edu. Overview An alignment between two DNA se...

QuickLift is now available for beta testing. It maps genome annotations to another assembly (LiftOver) on demand, in real time, lifting only the annotations in the currently visible region. As a beta feature, it may contain bugs. More details at

Image of an animated banana slug with glasses sitting at the ucsc genome browser. Text reads: we're hiring.

📢 We're hiring a Genomics Senior Systems Architect!
The incumbent will be responsible for the Genomics Institute's complex computing infrastructure, including central and departmental systems, high-throughput storage, web systems, & cloud environments.
Apply at jobs.ucsc.edu using job code 82880.

New gnomAD Missense Deleteriousness Prediction by Constraint (MPC) track for hg19. It shows a score that identifies missense-depleted regions using rare missense variation in 125,748 gnomAD v2.1.1 exomes. OE values: yellow=low, blue-purple=high. More at genome.ucsc.edu/gold...

We are pleased to announce Release 2 of the Varaico Variants track and a new Varaico Variants (suppl) track for hg38/hg19. The update brings the track to over 5.5M variants, and the new suppl track shows variants from supplementary files. Learn more at:
genome.ucsc.edu/gold...

A new hub is available for the new T2T Rhesus and Crab-eating macaque genomes. The hub includes tracks for copy number variation, assembly validation, alignments, and more. Thanks to @ShilongZha297 for creating this hub. View it here: genome.ucsc.edu/cgi-...

We are happy to announce the release of the GENCODE "knownGene" V49 (hg38/hg19) and VM38 (mm39) gene tracks.

Learn more about the release from the following news post:
genome.ucsc.edu/gold...

These tracks are useful in combination with the variants track for evaluating new transcript models. They can be used to assess potential exon boundaries or possible splice acceptor sites.

We are pleased to announce the hg38 SpliceAI Wildtype tracks. These tracks show the scores for the genome sequence itself, without variants, from predicted splice donor and splice acceptor sites. More at bit.ly/spliceAIWt

We are happy to announce the hg38 Panmask Easy 151b Regions track. It contains a set of sample-agnostic easy regions where short-read variant calling reaches high accuracy and can be used to filter variant calls for clinical or research samples. More at bit.ly/Panmask

We are excited to announce the release of the CoLoRSdb small and structural variant tracks for the human assemblies GRCh38/hg38 and CHM13/hs1.

Learn more about this release at:
genome.ucsc.edu/gold...

We are pleased to announce the release of the Developmental Disorders Genotype-to-Phenotype (DDG2P) track for hg19 and hg38. The DDG2P track displays genes associated with severe developmental disorders.

Learn more at:
genome.ucsc.edu/gold...

UCSC Genome Browser User Satisfaction Survey | SurveyMars I have posted a survey titled 'UCSC Genome Browser User Satisfaction Survey' on SurveyMars. Please help me by filling it out. Thank you very much!

Please take a moment to tell us how you use the Genome Browser: surveymars.com/q/mnb...

Your feedback supports future improvements and our continued funding.

We are excited to announce the release of the MaveDB Experiment Heatmaps and Alignment track for hg38. Each heatmap shows the results of many small substitutions that were tested within a gene to examine their functional consequences.

Learn more at:
http://bit.ly/4lCIlLq

New Capture long-seq (CLS) long-read lncRNAs tracks are available for hg38 and mm10. These tracks represent the results of targeted long-read RNA sequencing aimed at identifying lowly expressed lncRNAs.

See our news for more: bit.ly/CLSlongRead

We are pleased to announce new PanelApp Australia tracks for hg38/hg19 in the PanelApp composite track. These display expert, crowdsourced diagnostic disease panels for genes, CNVs, and STRs, with data distinct from the Genomics England PanelApp. More at bit.ly/PanelAppAustr...

We are pleased to announce our latest public hub, UniversalEPI ENCODE for hg38. It shows Hi-C interaction predictions based on ENCODE ATAC-seq data, generated by UniversalEPI: bit.ly/UniversalEPI_...

Thanks to the Boeva Lab at ETH Zurich for creating this hub.

We are excited to announce the release of the PubTator Variants track for human assemblies, hg38 and hg19. These tracks were created using PubTator3 data and are freely accessible to the research community.

Read more at:
genome.ucsc.edu/gold...

We’re excited to announce support for bedMethyl and bigMethyl, new track formats for visualizing base-resolution DNA methylation from bisulfite sequencing or similar methods at single-base resolution across the genome in the UCSC Genome Browser. More info: genome.ucsc.edu/gold...

We’re adding two new UI features to the Genome Browser: a gear icon in the grey bar and an "X" to quickly remove tracks. We’d love your feedback—thanks for helping us improve!

🔗 forms.gle/s2QnMrbEYu...