32e6f06a36a70994554082d2c7fd6e83c5cbb7f9 mary Tue Aug 17 16:26:10 2010 -0700 putting the cat in the news, archiving old stories diff --git src/hg/htdocs/indexNews.html src/hg/htdocs/indexNews.html index ae1b80f..e75b0a2 100644 --- src/hg/htdocs/indexNews.html +++ src/hg/htdocs/indexNews.html @@ -1,76 +1,89 @@ <!--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></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="https://lists.soe.ucsc.edu/mailman/listinfo/genome-announce" TARGET=_blank>genome-announce</A> mailing list.</P> <!-- start news --> <P> - <FONT FACE="courier" SIZE="3"><B>23 July 2010 - BigBed/BigWig Paper Published</B></FONT> + <FONT FACE="courier" SIZE="3"><B>18 August 2010 - Cat Genome Browser Available</B></FONT> </P> - <P>Last summer, we announced the release of new data formats for very large data sets: BigBed - and BigWig. Read more about these data formats - <A HREF="https://lists.soe.ucsc.edu/pipermail/genome-announce/2009-July/000165.html" - TARGET=_blank>here</A>. As a follow up, we are pleased to announce that we have published a - paper on these new file formats. + We have released a Genome Browser for the latest assembly of Cat (<em>Felis catus</em>). + The GTB V17E assembly (December 2008, UCSC version felCat4) was produced by the NHGRI + Genome Technology Branch and NIH Intramural Sequencing Center, Maryland; Agencourt + Bioscience Corporation, Massachusetts; NCI Laboratory of Genomic Diversity, Maryland; + and Hill's Pet Nutrition, Inc, Kansas. The mitochondrial genome was sequenced by NCI + Laboratory of Genomic Diversity. For detailed sequencing and assembly information, see + the NCBI Felis catus + <a href="http://www.ncbi.nlm.nih.gov/sites/entrez?Db=genomeprj&cmd=ShowDetailView&TermToSearch=10703" + TARGET=_blank>assembly page</a>. + </p> + + <p> + Downloads of the Cat data and annotations may be obtained from the + <A HREF="ftp://hgdownload.cse.ucsc.edu/goldenPath/felCat4/">UCSC FTP site</A> + or + <A HREF="http://hgdownload.cse.ucsc.edu/downloads.html#cat">Downloads</A> + page. These data have been freely provided for use in the UCSC Genome Browser + with specific conditions for use. + </p> + + <p> + Many thanks to NHGRI, Agencourt Bioscience Corporation, NCI and Hill's Pet Nutrition + for providing these data. The felCat4 annotation tracks were generated by UCSC and + its collaborators. We'd also like to acknowledge the UCSC Cat browser team: Chin Li, + Antonio Coelho, Mary Goldman and Donna Karolchik. See the + <A HREF="goldenPath/credits.html#cat_credits">Credits</A> + page for a detailed list of the organizations and individuals who contributed to + this release. + </p> + + </P><HR> + + <P> + <FONT FACE="courier" SIZE="3"><B>23 July 2010 - BigBed/BigWig Paper Published:</b></FONT> + We are pleased to announce that we have published a paper on the BigBed and BigWig + format. <A HREF="goldenPath/newsarch.html#072310">Read more</A>. <BLOCKQUOTE> Kent WJ, Zweig AS, Barber G, Hinrichs AS, Karolchik D. <A HREF="http://bioinformatics.oxfordjournals.org/cgi/content/abstract/btq351" TARGET=_blank>BigWig and BigBed: enabling browsing of large distributed data sets.</A> <EM>Bioinformatics</EM>. 2010 July 17. Published online in advance of print. </BLOCKQUOTE> - <P>From the abstract:<BR> - BigWig and BigBed files are compressed binary indexed files containing data at several - resolutions that allow the high-performance display of next-generation sequencing experiment - results in the UCSC Genome Browser. The visualization is implemented using a multi-layered - software approach that takes advantage of specific capabilities of web-based protocols and - Linux and UNIX operating systems files, R trees, and various indexing and compression tricks. - As a result, only the data needed to support the current browser view is transmitted rather - than the entire file, enabling fast remote access to large distributed data sets.</P> - - <P>The supplemental materials (available online) contain the technical details about the - implementation. </P><HR> <P> <FONT FACE="courier" SIZE="3"><B>15 July 2010 - Conservation track available for zebrafish (danRer6): </b></FONT> We are pleased to announce the release of a new Conservation track based on the zebrafish (danRer6) assembly. <A HREF="goldenPath/newsarch.html#071510">Read more</A>. </P> - <HR> - <FONT FACE="courier" SIZE="3"><B>4 June 2010 - dbSNP -131 Available for hg19: </B></FONT> - We are pleased to announce the release of dbSNP build 131, - available from on the human assembly (GRCh37/hg19). - <A HREF="goldenPath/newsarch.html#060410">Read more</A>. - </p> </TD><TD WIDTH=15> </TD></TR></TABLE> <BR></TD></TR></TABLE> </TD></TR></TABLE>