c11c9ea824cec06a1ab0e78a1744d418358041df donnak Tue Sep 30 17:06:17 2014 -0700 Made a few edits. diff --git src/hg/htdocs/indexNews.html src/hg/htdocs/indexNews.html index 69deccc..1b528ee 100755 --- src/hg/htdocs/indexNews.html +++ src/hg/htdocs/indexNews.html @@ -1,136 +1,137 @@ <!-- 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>30 September 2014 - - Genome Browser for the Ebola Virus Now Available</b> + Genome Browser and Portal Released for the Ebola Virus</b> </font> <p> - We are excited to announce the release of a Genome Browser for the June 2014 assembly - of Ebola Virus (Sierra Leone 2014 (G3683/KM034562.1), UCSC version eboVir3)! The sequence, - <a href="http://www.ncbi.nlm.nih.gov/nuccore/KM034561" target="_blank">KM034562</a> was - deposited into GenBank by the Pardis Sabeti lab at the Broad Intstitue. We have worked - closely with the Sabeti lab and other Ebola experts throughout the world to incorporate + We are excited to announce the release of a Genome Browser and information portal for the + Aug. 2014 assembly of the Ebola virus (UCSC version eboVir3, GenBank accession + <a href="http://www.ncbi.nlm.nih.gov/nuccore/KM034562" target="_blank">KM034562</a>) + submitted by the Broad Institute. We have worked closely with the Pardis Sabeti lab at + the Broad Institute and other Ebola experts throughout the world to incorporate annotations that will be useful to those studying Ebola. Annotation tracks included in this - intitial release include genes from <a href="http://www.ncbi.nlm.nih.gov/" + initial release include genes from <a href="http://www.ncbi.nlm.nih.gov/" target="_blank">NCBI</a>, B- and T-cell epitopes from the <a href="http://www.iedb.org/" - target="_blank">IEDB</a>, structural annotiation from <a href="http://www.uniprot.org/" + target="_blank">IEDB</a>, structural annotiations from <a href="http://www.uniprot.org/" target="_blank">UniProt</a> and a wealth of SNP data from the <a href="http://www.ncbi.nlm.nih.gov/pubmed/25214632" target="_blank">2014 publication</a> - from the Sabeti lab. This initial release also contains a 160-way alignment of - 158 Ebola virus sequences from various African outbreaks, and 2 Marburg virus sequences. + by the Sabeti lab. This initial release also contains a 160-way alignment + comprising 158 Ebola virus sequences from various African outbreaks and 2 Marburg virus + sequences. You can find links to the Ebola virus Genome Browser and more information on the Ebola virus - itself on our <a href="/ebolaPortal/">Ebola Portal</a>. + itself on our <a href="/ebolaPortal/">Ebola Portal</a> page. </p> <p> Bulk downloads of the sequence and annotation data are available via the Genome Browser <a href="ftp://hgdownload.cse.ucsc.edu/goldenPath/eboVir3/">FTP server</a> or the - <a href="http://hgdownload.cse.ucsc.edu/downloads.html#ebola">Downloads</a> - page. These data have - <a href="../goldenPath/credits.html#ebola_use">specific conditions for use</a>. + <a href="http://hgdownload.cse.ucsc.edu/downloads.html#ebola_virus">Downloads</a> + page. The Ebola virus (eboVir3) browser annotation tracks were generated by UCSC and collaborators worldwide. See the - <a href="../goldenPath/credits.html#ebola_credits">Credits</a> page for a detailed - list of the organizations and individuals who contributed to this release. + <a href="goldenPath/credits.html#ebola_credits">Credits</a> page for a detailed + list of the organizations and individuals who contributed to this release and + the conditions for use of these data. </p> <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 Johnson from Ensembl and Kate Rosenbloom and Matthew Speir from UCSC 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>30 September 2014 - Genome Browser for the Ebola Virus Now Available</b>: </font> We are excited to announce the release of a Genome Browser for the June 2014 assembly of Ebola Virus (Sierra Leone 2014 (G3683/KM034562.1), UCSC version eboVir3). </p> <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> --> <!-- start archives --> <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> <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> </TD><TD WIDTH=15> </TD></TR></TABLE> <BR></TD></TR></TABLE> </TD></TR></TABLE>