c3c814457b0c20084db1756d475117256f1507c6 mspeir Tue Sep 23 12:01:28 2014 -0700 Adding announcement for Ensembl Regulatory Build hub, refs #10311 diff --git src/hg/htdocs/indexNews.html src/hg/htdocs/indexNews.html index 747b3fc..b1f394f 100755 --- src/hg/htdocs/indexNews.html +++ src/hg/htdocs/indexNews.html @@ -1,116 +1,117 @@ <!-- News Section ============================================- --> <TABLE WIDTH="100%" BGCOLOR="#888888" BORDER="0" CELLSPACING="0" CELLPADDING="1"> <TR><TD> <TABLE BGCOLOR="#fffee8" WIDTH="100%" BORDER="0" CELLSPACING="0" CELLPADDING="0"> <TR><TD> <TABLE BGCOLOR="#D9E4F8" BACKGROUND="images/hr.gif" WIDTH="100%" BORDER=0> <TR><TD> <!--cheap trick to get background on row to be continuous--> <TABLE CELLPADDING=0 CELLSPACING=0 WIDTH="100%"> <TR><TD ALIGN="left"> <font size="4"><a name="TOC"></a><b> News</b></font><a href="http://www.twitter.com/GenomeBrowser" target="_blank"><img src="http://twitter-badges.s3.amazonaws.com/t_small-a.png" title="Follow @GenomeBrowser on Twitter" alt="Follow @GenomeBrowser on Twitter" style="vertical-align:text-bottom; margin-left: 15px;"></a> <a title="Genome Browser Facebook page" href="http://www.facebook.com/ucscGenomeBrowser" target="_blank"><img src="/images/FB-f-Logo__blue_22.jpg" style="vertical-align:text-bottom; margin-left: 15px;" alt="Genome Browser Facebook page"></a> <a href="https://plus.google.com/107643636314131661344" rel="publisher"></a> </TD> <TD ALIGN="right"><A HREF="goldenPath/newsarch.html"><IMG SRC="images/news.jpg" ALT="" ALIGN="right" BORDER=0></A> </TD></TR></TABLE> </TD></TR></TABLE> <TABLE BGCOLOR="#fffee8" WIDTH="100%" CELLPADDING=0> <TR><TH HEIGHT=3></TH></TR> <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.</P> <!-- start news --> <hr> + <font face="courier" size="3"><b>23 September 2014 - + Ensembl Regulatory Build Now Available in the Genome Browser</b> + </font> + <p> + We are pleased to announce that data from the + <a href="http://www.ensembl.org/info/genome/funcgen/regulatory_build.html" + target="_blank">Ensembl Regulatory Build</a> is now available in the UCSC Genome Browser + as a public track hub for both hg19 and hg38. This track hub contains promoters and their + flanking regions, enhancers, and many other regulatory features predicted across a number + of cell lines using annotated segmentation states. Click + <a href="/cgi-bin/hgTracks?db=hg19&position=chr21%3A33031597-33041570&hubUrl=http://ngs.sanger.ac.uk/production/ensembl/regulation/hub.txt">here</a> + to view this hub on the hg19 assembly, or click + <a href="/cgi-bin/hgTracks?db=hg38&position=chr9%3A133252000-133280861&hubUrl=http://ngs.sanger.ac.uk/production/ensembl/regulation/hub.txt">here</a> + to view it on the hg38 assembly. + </p> + <p> + We would like to thank our collaborators Daniel Zerbino, Steve Wilder, and Nathan Boley + from Ensembl and Kate Rosenbloom and Matthew Speir from UCSC for their efforts in + bringing these resources to the UCSC Genome Browser. + </p> + + <hr> <font face="courier" size="3"><b>04 September 2014 - New ENCODE portal launched at <a href="https://www.encodeproject.org">www.encodeproject.org</a></b> </font> <p> The website for up-to-date information about the ENCODE project is no longer hosted at <a href="ENCODE/index.html">genome.ucsc.edu/ENCODE</a>. Those UCSC ENCODE pages now archive information and tools from the ENCODE production and pilot phases (2003 to 2012) including live links to visualize and download data. Please navigate to the new ENCODE portal for recent data releases. Along with the ability to use faceted searching to explore all ENCODE data, the ENCODE portal provides visualization in the UCSC Genome Browser via a "Visualize Data" link on assay pages when processed data files are available. </p> <hr> - <font face="courier" size="3"><b>03 September 2014 - - Data from the FaceBase Consortium Now Available in the Genome Browser</b> - </font> - </p> - <p> - We are pleased to announce that much of the data from the <a href="https://www.facebase.org/" - target="_blank">FaceBase Consortium</a> is now available in the UCSC Genome Browser as a - public track hub. This track hub contains data from numerous experiments carried out by - the Potter and Visel labs to study craniofacial development in mice and humans, with - tracks for the mm9, mm10, hg18, and hg19 assemblies. You can check out the hub on the - mm9 assembly - <a href="/cgi-bin/hgTracks?db=mm9&position=chr12%3A57795963-57815592&hubUrl=http://trackhub.facebase.org/hub.txt" - target="_blank">here</a>. In addition to this public track hub, we have a set of - microarray expression data hosted as a native track for both the mm9 and mm10 assemblies. - This expression data compares expression across the mouse genome for a number of embryonic - days and craniofacial cell types. For more information on this track, please see the track - <a href="/cgi-bin/hgTrackUi?org=mouse&db=mm9&g=FaceBase24SampleTypesAvg" - target="_blank">description page</a>. - </p> - <p> - We would like to thank Robert Kuhn, Pauline Fujita, and Matthew Speir from UCSC and Thomas - Maher from the FaceBase Consortium for their efforts in bringing these resources to the - UCSC Genome Browser. - </p> - <hr> <!-- staged for archive use. NOTE: condense header line from .... </b></font><p> to </b>: </font> + <p> + <font face="courier" size="3"><b>23 September 2014 - + Ensembl Regulatory Build Now Available in the Genome Browser</b>: </font> + We are pleased to announce that data from the + <a href="http://www.ensembl.org/info/genome/funcgen/regulatory_build.html" + target="_blank">Ensembl Regulatory Build</a> is now available in the UCSC Genome Browser + as a public track hub for both hg19 and hg38. + <a href="goldenPath/newsarch.html#092314">Read more</a>. + </p> <p> <font face="courier" size="3"><b>04 September 2014 - New ENCODE portal launched at <a href="https://www.encodeproject.org">www.encodeproject.org</a></b>: </font> The website for up-to-date information about the ENCODE project is no longer hosted at <a href="ENCODE/index.html">genome.ucsc.edu/ENCODE</a>. <a href="goldenPath/newsarch.html#090414">Read more</a>. </p> + --> + + <!-- start archives --> <p> <font face="courier" size="3"><b>03 September 2014 - Data from the FaceBase Consortium Now Available in the Genome Browser</b>: </font> We are pleased to announce that much of the data from the <a href="https://www.facebase.org/" target"_blank">FaceBase Consortium</a> is now available in the UCSC Genome Browser as a public track hub. <a href="goldenPath/newsarch.html#090314">Read more</a>. </p> - <!-- start archives --> + <p> <font face="courier" size="3"><b>30 July 2014 - New Rat (rn6) Assembly Now Available in the Genome Browser</b>:</font> We are excited to announce the release of a Genome Browser for the July 2014 assembly of rat, <em>Rattus norvegicus</em> (RGSC Rnor_6.0, UCSC version rn6). <a href="goldenPath/newsarch.html#073014">Read more</a>. </p> - <p> - <font face="courier" size="3"><b> 15 July 2014 - - New Shrew (sorAra2) Assembly Now Available in the Genome Browser</b>: </font> - We are pleased to announce the release of a Genome Browser for the August 2008 - assembly of shrew, <em>Sorex araneus</em> (Broad SorAra2.0, UCSC version - sorAra2). <a href="goldenPath/newsarch.html#071514">Read more</a>. - </p> - </TD><TD WIDTH=15> </TD></TR></TABLE> <BR></TD></TR></TABLE> </TD></TR></TABLE>