UCSC Genome Browser

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...

We are happy to announce the release of the Bionano DLE-1 track for human assemblies hg38 and hg19. These tracks show the CTTAAG sites used by the Bionano Optical Genome Mapping system, an assay to detect structural variants.

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

New ENCODE4 long-read RNA-seq transcripts track for hg38 and mm10. Triplets (e.g. [1,1,3]) indicate start site, exon combination, and stop site for each transcript. Enrichment scores show how these change across tissue and cell line samples.

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

We have two new pathogenicity prediction score tracks available in our Deleteriousness Predictions super track: MCAP and MutScore!

Both are aimed at interpreting the pathogenicity of variants in a clinical setting.

See our news for more: bit.ly/UCSCmutScoreMCAP

We are happy to announce the release of the Unusually Conserved Regions track for GRCh38/hg38. For more information about the release, please read the news announcement:

genome.ucsc.edu/gold...

We turn 25 today!

July 7th marks the 25th anniversary of the human genome going online and the start of the UCSC Genome Browser.

Then vs. now, we have 165k monthly visitors, and our codebase is over three million lines of code.

See our news for more: bit.ly/genomeBrowser...

We have a new training page with updated tutorials covering our most popular tools. Each includes an annotated screenshot, guided walkthroughs, and an interactive click-through tutorial.

See our news for more: bit.ly/genomeBrowser...

We are pleased to announce the release of the All GENCODE tracks for hg19, hg38, and mm39. These tracks correspond with the Ensembl 114 release.

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

We are happy to announce the release of the EVA SNP Release 7 tracks, now available for 40 assemblies and covering nearly 910 million variants.

Learn more at http://genome.ucsc.e....

Are you at #eshg2025 ? Visit us at booth 226!

We will also be co-presenting a workshop on Monday, 5/26, with @ensembl at 14:15.

We are excited to announce the release of the Varaico tracks for human assemblies hg38 and hg19. Varaico stands for "Variation Research Advancing Insight in Complex Organisms". Varaico was created using literature mining, similar to AVADA.

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

New tracks now available: GENCODE "knownGene" V48 for human (hg38/hg19) and VM37 for mouse (mm39).

Read more about this release in this news post: genome.ucsc.edu/gold...

The pext track is also present in our new Exon Relevance RTS, which can assist in variant interpretation by evaluating if the variant is present in an exon required for the gene product's function.

See our news for more: bit.ly/ExonRelevance...