UCSC Genome Bioinformatics
Genomes- Blat- Tables- Gene Sorter- PCR- VisiGene- Session- FAQ- Help
Genome Browser
Table Browser
Gene Sorter
In Silico PCR
Genome Graphs
Release Log
Custom Tracks
Cancer Browser
Microbial Genomes
Cite Us
Contact Us

  About the UCSC Genome Bioinformatics Site

Welcome to the UCSC Genome Browser website. This site contains the reference sequence and working draft assemblies for a large collection of genomes. It also provides portals to ENCODE data at UCSC (2003 to 2012) and to the Neandertal project. Download or purchase the Genome Browser source code, or the Genome Browser in a Box (GBiB) at our online store.

WARNING: This is our preview site. This website is a weekly mirror of our internal development server for public access. Data and tools on this site are under construction, have not been reviewed for quality, and are subject to change at any time. We provide this site for early access, with the warning that it is less available and stable than our public site. For high-quality, reviewed annotations on our production server, visit http://genome.ucsc.edu.

We encourage you to explore these sequences with our tools. The Genome Browser zooms and scrolls over chromosomes, showing the work of annotators worldwide. The Gene Sorter shows expression, homology and other information on groups of genes that can be related in many ways. Blat quickly maps your sequence to the genome. The Table Browser provides convenient access to the underlying database. VisiGene lets you browse through a large collection of in situ mouse and frog images to examine expression patterns. Genome Graphs allows you to upload and display genome-wide data sets.

The UCSC Genome Browser is developed and maintained by the Genome Bioinformatics Group, a cross-departmental team within the UC Santa Cruz Genomics Institute and the Center for Biomolecular Science and Engineering (CBSE) at the University of California Santa Cruz (UCSC). If you have feedback or questions concerning the tools or data on this website, feel free to contact us on our public mailing list.

The Genome Browser project team relies on public funding to support our work. Donations are welcome -- we have many more ideas than our funding supports! If you have ideas, drop a comment in our suggestion box.

Give to the UCSC Genome Browser

  NewsFollow @GenomeBrowser on Twitter Genome Browser Facebook page

To receive announcements of new genome assembly releases, new software features, updates and training seminars by email, subscribe to the genome-announce mailing list. Please see our blog for posts about Genome Browser tools, features, projects and more.

12 February 2015 - Blat Your Assembly Hub

Assembly data hubs, track hubs that allow researchers to annotate genomes that are not in the UCSC Genome Browser, can now use blat to quickly find DNA and protein sequences in their unique assemblies.

While running remote blat servers with the gfServer utility, you can now add lines to your assembly hub's genomes.txt file to inform the Browser where to send blat searches. Or by downloading and installing a virtual machine Genome Browser In a Box (GBiB), you can alternatively locally run gfServers, preinstalled on GBiB, all from your laptop. For more information see the Assembly Hub Wiki and the new Quick Start Guide to Assembly Hubs.

11 February 2015 - dbSNP 142 Available for hg19 and hg38

We are pleased to announce the release of four tracks derived from NCBI dbSNP Build 142 data, available on the two most recent human assemblies GRCh37/hg19 and GRCh38/hg38. The new tracks contain a substantial amount of additional annotation data not included in previous dbSNP tracks, with corresponding coloring and filtering options in the Genome Browser.

There are four SNP tracks available as part of this release. One is a track containing all mappings of reference SNPs to the human assembly, labeled "All SNPs (142)". The other three tracks are subsets of this track and show interesting and easily defined subsets of dbSNP:

  • Common SNPs (142): uniquely mapped variants that appear in at least 1% of the population or are 100% non-reference
  • Flagged SNPs (142): uniquely mapped variants, excluding Common SNPs, that have been flagged by dbSNP as "clinically associated"
  • Mult. SNPs (142): variants that have been mapped to more than one genomic location

By default, only the Common SNPs (142) are visible; other tracks must be made visible using the track controls. You will find the other SNPs (142) tracks on both of GRCh37/hg19 and GRCh38/hg38 browsers in the "Variation" group.

The tracks were produced at UCSC by Angie Hinrichs and Jonathan Casper. We'd like to thank the dbSNP group at NCBI for providing access to these data.

As part of this release, we are also retiring the older dbSNP Build 135 and 137 data from display on the GRCh37/hg19 human assembly. Those tracks will still be available for viewing on our preview server, and the associated masked FASTA files will continue to be available on our download server.

2 February 2015 - Host a Genome Browser Workshop: Host a Genome Browser workshop at your institution! Read more.

23 January 2015 - Genome Browser YouTube Channel: We are pleased to announce the release of the UCSC Genome Browser YouTube channel. Read more.

  Conditions of Use

The Genome Browser software, sequence and annotation data are freely available for use with these conditions. A license is required for commercial use of the software. For assistance with questions or problems regarding the UCSC Genome Browser software, database, genome assemblies, or release cycles, click here.

Program-driven use of this software is limited to a maximum of one hit every 15 seconds and no more than 5,000 hits per day.

The UCSC Genome Browser was created by the Genome Bioinformatics Group of UC Santa Cruz. Software Copyright (c) The Regents of the University of California. All rights reserved.