7a18c8c8eff23c56352b3fd1f67bd70d90f928bc kuhn Tue Jul 27 14:27:34 2010 -0700 added omitted 'of' diff --git src/hg/htdocs/indexNews.html src/hg/htdocs/indexNews.html index 6964365..c14c4d1 100755 --- src/hg/htdocs/indexNews.html +++ src/hg/htdocs/indexNews.html @@ -1,172 +1,172 @@ <!--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> </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. <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>21 July 2010 - Free Genome Browser workshops available </B></FONT> </P> <P>In the years since its introduction, the UCSC Genome Browser has become an important tool for research and teaching. As it has grown in capacity and therefore complexity, however, even experienced users sometimes have difficulty leaning how to make the most of it. </P> <P>We plan to - provide a limited number free browser training workshops at selected + provide a limited number of free browser training workshops at selected institutions during the coming year. We invite you to apply. Please indicate your interest by completing our survey: <A HREF = "http://www.surveymonkey.com/s/XJF93F5" TARGET = _BLANK><B>Apply for free workshop</B></A> </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> <P> <FONT FACE="courier" SIZE="3"><B>7 July 2010 - Happy 10th Birthday, Human Genome!</B></FONT> <P><TABLE ALIGN = RIGHT><TR><TD ALIGN = RIGHT WIDTH = 519 HEIGHT = 344> <IMG SRC = "../../images/10yrGraph4.gif" WIDTH = 504 HEIGHT = 329 ALIGN = RIGHT> </TD></TR> <TR><TD ALIGN=RIGHT> <FONT SIZE=-1> Top graph: total traffic on the UCSC domain during June-July, 2000. Bottom graph: page hit <BR> statistics on genome.ucsc.edu in the ensuing years since the Genome Browser was released. <BR> </FONT> </TD></TR></TABLE> <P> UCSC is pleased to celebrate the 10-year anniversary of the debut of the first assembled human genome sequence and its then-fledgling visualization tool, the UCSC Genome Browser. Released on July 7, 2000, the genome sequence instantly created unprecedented web traffic on the ucsc.edu domain as researchers around the world scrambled to download the data: 0.5 terabytes per day, a record that stood for many years. <P> David Haussler recounts that day: "Seeing the waterfall of As, Gs, Cs, and Ts pouring off our server was an emotional moment. We were witnessing the product of more than three billion years of evolution, sequences passed down from the beginning of life to present-day humans." <sup>1</sup> <P> The UCSC Genome Bioinformatics group is proud of the role we have played in bringing the human genome, as well as the genomes of many other species, to the world. We'd like to thank NHGRI, HHMI, and our other funding agencies for making this service possible, and also our many users and collaborators for their suggestions, contributions, and support throughout the years. We look forward to serving as a reliable source of bioinformatics tools and genomic annotations in the years to come while facing the exciting challenges presented by rapidly advancing technology. <P> To read more about UCSC's role in the race to assemble the first working draft of the human genome, including Jim Kent's remarkable programming feat that pulled it all together in the final weeks, see the <A HREF="http://www.cbse.ucsc.edu/research/hgp_race" TARGET=_blank>Center for Biomolecular Science and Engineering</A> (CBSE) website. </P><P> <FONT SIZE=-1> (1) Sansom C, Morrison McKay BJ (2008) ISCB Honors David Haussler and Aviv Regev. PLoS Comput Biol 4(7): e1000101 </FONT> </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><p> <FONT FACE="courier" SIZE="3"><B>6 May 2010 - UCSC Hosts Portal for Neandertal Sequence, Alignments, and Analyses: </B></FONT> In conjunction with the publication of the paper Green <em>et al.</em> <A HREF="http://www.sciencemag.org/cgi/content/full/328/5979/710" TARGET=_blank>A Draft Sequence of the Neandertal Genome</A> in the May 7 issue of <em>Science</em>, the UCSC Genome Browser project has released a public <A HREF="Neandertal">Neandertal portal</A> that may be used to access the Neandertal sequence, alignments to the UCSC hg18 (NCBI Build 36) human reference assembly and the UCSC panTro2 (Chimpanzee Sequencing and Analysis Consortium v2.1) chimpanzee reference assembly, and several associated analyses. <A HREF="goldenPath/newsarch.html#050610">Read more</A>. </P> </TD><TD WIDTH=15> </TD></TR></TABLE> <BR></TD></TR></TABLE> </TD></TR></TABLE>