66da50ababafd15871199f8560ca1835f06fe54c jcasper Wed Feb 11 17:02:09 2015 -0800 Adding announcement of snp142 release, refs #14189 diff --git src/hg/htdocs/indexNews.html src/hg/htdocs/indexNews.html index e042869..a6ebe0f 100755 --- src/hg/htdocs/indexNews.html +++ src/hg/htdocs/indexNews.html @@ -26,30 +26,63 @@ <TR><TD WIDTH=10></TD> <TD> <P> To receive announcements of new genome assembly releases, new software features, updates and training seminars by email, subscribe to the <A HREF="http://groups.google.com/a/soe.ucsc.edu/group/genome-announce?hl=en" TARGET=_blank>genome-announce</A> mailing list. Please see our <a href="http://genome.ucsc.edu/blog" target=_blank>blog</a> for posts about Genome Browser tools, features, projects and more. </p> <!-- start news --> <hr> <p> + <font face="courier" size="3"><b>11 February 2015 - dbSNP 142 Available for hg19 and hg38</b></font> + <p> + We are pleased to announce the release of four tracks derived from NCBI + <a href="http://www.ncbi.nlm.nih.gov/SNP/" target="_blank">dbSNP</a> 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. + </p> + <p> + 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: + </p> + <ul> + <li>Common SNPs (142): uniquely mapped variants that appear in at least 1% + of the population or are 100% non-reference + <li>Flagged SNPs (142): uniquely mapped variants, excluding Common SNPs, + that have been flagged by dbSNP as "clinically associated" + <li>Mult. SNPs (142): variants that have been mapped to more than one genomic location + </ul> + <p> + 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. + </p> + <p> + 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. + </p> + <hr> + <p> <font face="courier" size="3"><b>2 Febuary 2015 - Host a Genome Browser Workshop</b></font> <p> New timeslots are now available to host a Genome Browser workshop at your institution. Thanks to the funding support of NHGRI, we offer hands-on Genome Browser training onsite at your institution, tailored to your audience's level of expertise. </p> <p> For more information or to submit a request to host a workshop, please visit <a href="http://bit.ly/ucscTraining" target="_blank">our signup</a>. </p> <hr> <p> <font face="courier" size="3"><b>23 January 2015 - Genome Browser YouTube Channel</b></font> @@ -102,71 +135,71 @@ <a href="https://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/buildDetails?atlas_build_id=433" target="_blank"> PeptideAtlas August 2014 (Build 433) Human build</a>. This build, based on 971 samples containing more than 420 million spectra, identified over a million distinct peptides covering more than 15,000 canonical proteins. To read more about this track, please see the <a href="http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=peptideAtlas" target="_blank"> track description page</a>. Many thanks to Eric Deutsch, Zhi Sun, and the PeptideAtlas team at the Institute for Systems Biology, Seattle for providing this data. </p> <hr> <!-- start archives --> <!-- <p> + <font face="courier" size="3"><b>11 February 2015 - dbSNP 142 Available for hg19 and hg38</b></font> + We are pleased to announce the release of four tracks derived from NCBI + <a href="http://www.ncbi.nlm.nih.gov/SNP/" target="_blank">dbSNP</a> 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. + <a href="goldenPath/newsarch.html#021115">Read more</a>. + </p> + + <p> <font face="courier" size="3"><b>2 Febuary 2015 - Host a Genome Browser Workshop</b>: </font> Host a Genome Browser workshop at your institution! Thanks to the funding support of NHGRI, we offer hands-on Genome Browser training onsite at your institution, tailored to your audience's level of expertise. <a href="goldenPath/newsarch.html#020215">Read more</a>. </p> <p> <font face="courier" size="3"><b>23 January 2015 - Genome Browser YouTube Channel</b>: </font> We are pleased to announce the release of the UCSC Genome Browser <a href="http://bit.ly/genomebrowserYoutube" target=_blank">YouTube channel</a>. The channel contains short videos showing how to use the Genome Browser and associated tools to solve selected problems. <a href="goldenPath/newsarch.html#012315">Read more</a>. </p> - +--> <p> <font face="courier" size="3"><b>15 January 2015 - Proteomics Data Now Available in Genome Browser</b>: </font> We are pleased to announce the release of proteomics data for the human hg19 assembly. Data from the National Cancer Institute's (NCI) <a href="http://proteomics.cancer.gov/programs/cptacnetwork" target="_blank"> Clinical Proteomic Tumor Analysis Consortium (CPTAC)</a> is now available in the UCSC Genome Browser as a public track hub. <a href="goldenPath/newsarch.html#011515">Read more</a>. </p> ---> - <p> <font face="courier" size="3"><b>19 December 2014 - New Cow (bosTau8) Assembly Now Available in the Genome Browser</b>: </font> We are pleased to announce the release of a Genome Browser for the June 2014 assembly of cow, <i>Bos taurus</i> (Bos_taurus_UMD 3.1.1, UCSC version bosTau8). <a href="goldenPath/newsarch.html#121914">Read more</a>. </p> <p> <font face="courier" size="3"><b>12 December 2014 - New <i>D. melanogaster</i> (dm6) Assembly Now Available in the Genome Browser</b>: </font> We are pleased to announce the release of a Genome Browser for the August 2014 assembly of <i>Drosophila melanogaster</i> (BDGP Release 6, UCSC version dm6). <a href="goldenPath/newsarch.html#121214">Read more</a>. - <p> - <font face="courier" size="3"><b>29 October 2014 - - Genome Browser in a Box (GBiB)</b>:</font> - Sometimes you just want to keep your genomics data to yourself. Have you ever - hesitated when uploading your data set into the UCSC Genome Browser? If so, - you'll be happy to know that we have created a stand-alone personal version: - Genome Browser in a Box (GBiB). <a href="goldenPath/newsarch.html#102914">Read more</a>. - </p> - </TD><TD WIDTH=15> </TD></TR></TABLE> <BR></TD></TR></TABLE> </TD></TR></TABLE>