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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
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
and the associated masked FASTA files will continue to be available on our
2 February 2015 - Host a Genome Browser Workshop:
Host a Genome Browser workshop at your institution!
23 January 2015 - Genome Browser YouTube Channel:
We are pleased to announce the release of the UCSC Genome Browser