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All rights reserved. Background image by Spencer Phillips</div> </aside> </div> </div> </div> <div id="primary" class="content-area col-lg-9" itemprop="mainContentOfPage"> <div id="content" class="site-content" role="main"> <article itemscope itemtype="http://schema.org/Article" id="post-41" class="post-41 post type-post status-publish format-standard hentry category-04-training"> <header class="entry-header"> <h2 class="entry-title" itemprop="name"> <a itemprop="url" href="https://www.ensembl.info/2008/01/21/upcoming-workshops-february/" title="Permalink to Upcoming Workshops – February" rel="bookmark">Upcoming Workshops – February</a> </h2> <div class="entry-meta"><span class="entry-date"><a href="https://www.ensembl.info/2008/01/21/upcoming-workshops-february/" rel="bookmark"><time class="entry-date published" datetime="2008-01-21T16:10:00+00:00" itemprop="datepublished">21st January 2008</time></a></span> by <span class="author vcard" itemscope itemprop="author" itemtype="http://schema.org/Person"><a class="url fn n" href="https://www.ensembl.info/author/giulietta/" rel="author" itemprop="url"><span itemprop="name">Giulietta (Outreach)</span></a></span><span class="sep">·</span><span class="comments-link"><span>Comments Off<span class="screen-reader-text"> on Upcoming Workshops – February</span></span></span></div> </header> <div class="entry-content" itemprop="articleBody"> <p><span style="color: rgb(51, 51, 255); font-weight: bold;">Ensembl Workshops in January took us to the West Coast (USA) and the Netherlands. Workshops in February:</span></p> <p>Browser w<a onblur="try {parent.deselectBloggerImageGracefully();} catch(e) {}" href="http://4.bp.blogspot.com/_4_r6PkKtVcE/R5THkJipVxI/AAAAAAAAABM/0msU_SZZXJc/s1600-h/IMG_0042.JPG"><img decoding="async" style="margin: 0pt 10px 10px 0pt; float: left; cursor: pointer;" src="http://4.bp.blogspot.com/_4_r6PkKtVcE/R5THkJipVxI/AAAAAAAAABM/0msU_SZZXJc/s200/IMG_0042.JPG" alt="" id="BLOGGER_PHOTO_ID_5157966897096513298" border="0" /></a>orkshop (Institute for Animal Health) Compton, UK 12 Feb</p> <p>Browser workshop (EURATools, University of Edinburgh) Edinburgh, UK 12 Feb</p> <p>Browser workshop (Cambridge University, Dept of Genetics) Cambridge, UK 28-29 Feb<br /><span style="font-size:78%;"><br /></span><span style="font-size:78%;"><br />Picture: Nijmegen, the Netherlands. The NBIC was the site of an Ensembl Browser workshop on 16 Jan, 2008</p> <p>Interested in hosting a workshop? Contact us!<br /></span></p> </div> </article> <article itemscope itemtype="http://schema.org/Article" id="post-39" class="post-39 post type-post status-publish format-standard hentry category-03-other"> <header class="entry-header"> <h2 class="entry-title" itemprop="name"> <a itemprop="url" href="https://www.ensembl.info/2008/01/20/bringing-back-the-dead/" title="Permalink to Bringing back the dead…" rel="bookmark">Bringing back the dead…</a> </h2> <div class="entry-meta"><span class="entry-date"><a href="https://www.ensembl.info/2008/01/20/bringing-back-the-dead/" rel="bookmark"><time class="entry-date published" datetime="2008-01-20T11:05:00+00:00" itemprop="datepublished">20th January 2008</time></a></span> by <span class="author vcard" itemscope itemprop="author" itemtype="http://schema.org/Person"><a class="url fn n" href="https://www.ensembl.info/author/ewan/" rel="author" itemprop="url"><span itemprop="name">Ewan Birney</span></a></span><span class="sep">·</span><span class="comments-link"><span>Comments Off<span class="screen-reader-text"> on Bringing back the dead…</span></span></span></div> </header> <div class="entry-content" itemprop="articleBody"> <p>Richard posted the next release intentions here:</p> <p>ensembl-dev archive</p> <p>Lots of good stuff – orangutan, horse being released, the usual tweaks about contamination (viral genes) into the gene sets being removed, little details.</p> <p>But one thing is quite a change. It is from Javier’s Compara team, and it is simply stated as</p> <p>“Generate the 7-way alignments using the new enredo-pecan-ortheus pipline”</p> <p>Unpacking this statement, it is a big change in how we’re thinking about comparative genomics alignments. Enredo is a method to produce a set of co-linear regions, sometimes called a “synteny map” though this term is a dreadful term. The key thing is that it handles duplications in the genome, allowing (say) two regions of human to be co-linear with one region of mouse. This is hard to handle on a genome-wide scale in a scaleable manner. Pecan is the multiple aligner written by the brilliant Ben Paten (used to be my student, and wrote Pecan whilst at the EBI; he is now at UCSC with Jim and David and co). Pecan is the best aligner – by both simulation testing and testing via ancient repeat alignability criteria – it has the highest sensitivity of alignment with the same specificity as the next best aligner. Finally Ortheus, also from Ben, provides (potentially) realignment whilst simultaneously sampling correctly from a probabilistic model of sequence evolution, critically including insertion and deletions, and thus as a side effect, producing likely ancestral sequences. This also has been stringently tested using a hold-one-out criteria, basically can we “predict” the marmoset sequence only using other extant species (answer – not completely correctly, but better than any other method, eg taking the nearest sequence).</p> <p>So – what does this all mean. Basically there are two key things:</p> <ol> <li>Handling lineage specific duplications. This is a headache, and we have a good solution, providing the alignment of therefore the paralogous and orthologous regions (the paralogy is limited to relatively recent paralogy, ie, within mammals) simultaneously</li> <li>We can reliably predict ancestoral sequences</li> </ol> <p>One headache is that some of the things we display, in particular the GERP continuous conservation score, needs to be adapted to work on the basis now of regions with paralogy. There is a fascinating piece of theory to work through here – what is the concept of the “neutral tree” when there has been a lineage specific duplication? How should one treat paralogs? Currently this is ignored by virtue of the fact that the alignments don’t allow this. Now the alignments do allow this, and we need to do something sensible, as well as stimulate evolution theory people to look at the data and work out new methods.</p> <p>The next headache is what do we do with the ancestral sequences? Dump them? Display them? Gene predict on them? If so, how?</p> <p>The end result is that release 49, even the comparative genomics, wont look very different, but it will have these new alignments, and over 2008 we will be working out how to present, analyse and leverage them more – so if you are interested, please do take them for a spin!</p> <p>(Release 49 is due to be out sometime in mid-Feb)</p> </div> </article> <article itemscope itemtype="http://schema.org/Article" id="post-38" class="post-38 post type-post status-publish format-standard hentry category-02-updates"> <header class="entry-header"> <h2 class="entry-title" itemprop="name"> <a itemprop="url" href="https://www.ensembl.info/2008/01/10/locus-specific-databases-and-diagnostic-databases/" title="Permalink to Locus Specific Databases and Diagnostic databases" rel="bookmark">Locus Specific Databases and Diagnostic databases</a> </h2> <div class="entry-meta"><span class="entry-date"><a href="https://www.ensembl.info/2008/01/10/locus-specific-databases-and-diagnostic-databases/" rel="bookmark"><time class="entry-date published" datetime="2008-01-10T16:44:00+00:00" itemprop="datepublished">10th January 2008</time></a></span> by <span class="author vcard" itemscope itemprop="author" itemtype="http://schema.org/Person"><a class="url fn n" href="https://www.ensembl.info/author/ewan/" rel="author" itemprop="url"><span itemprop="name">Ewan Birney</span></a></span><span class="sep">·</span><span class="comments-link"><span>Comments Off<span class="screen-reader-text"> on Locus Specific Databases and Diagnostic databases</span></span></span></div> </header> <div class="entry-content" itemprop="articleBody"> <p>The beginning of this week myself and Paul Flicek were in lovely Rotterdam at the Gen2Phen kick off meeting, an EU project lead by Tony Brookes from Leicester. Like all large European projects, the kick off meeting is a get-to-know everyone, have beers (very good ones in Holland) and get a feel for the project.</p> <p>For me, the exciting thing was getting closer to the locus specific databases – in the project is Johan den Dunnen (from just down the road in Leiden, Holland) and Andy Devereau (from Manchester) who run locus specific databases and diagnostic databases respectively. Getting this valuable data coordinated with genome data (and the fiddly bit is about sequence coordinates, at least at first) is going to be great thing to do.</p> <p>There’s lots to do in this area – certainly this is something that effects all the big browsers (UCSC, NCBI, ourselves) and has a had a long history of complex systems and sociological tensions in getting things sorted. But my sense in this small room hidden away in the Erasmus medical centre was that we had good people in the room, committed to finding a good solution whilst understanding the complexity of problem. Next up will be more technical meetings, but it was an excellent start. Don’t expect anything tomorrow, but I think we can expect something end of 2008/2009.</p> <p>And did I mention the beer was good as well?</p> </div> </article> <article itemscope itemtype="http://schema.org/Article" id="post-37" class="post-37 post type-post status-publish format-standard hentry category-01-release"> <header class="entry-header"> <h2 class="entry-title" itemprop="name"> <a itemprop="url" href="https://www.ensembl.info/2008/01/09/news-flash-pig-updated-in-the-pre-site/" title="Permalink to News Flash- Pig updated in the Pre! site." rel="bookmark">News Flash- Pig updated in the Pre! site.</a> </h2> <div class="entry-meta"><span class="entry-date"><a href="https://www.ensembl.info/2008/01/09/news-flash-pig-updated-in-the-pre-site/" rel="bookmark"><time class="entry-date published" datetime="2008-01-09T14:07:00+00:00" itemprop="datepublished">9th January 2008</time></a></span> by <span class="author vcard" itemscope itemprop="author" itemtype="http://schema.org/Person"><a class="url fn n" href="https://www.ensembl.info/author/giulietta/" rel="author" itemprop="url"><span itemprop="name">Giulietta (Outreach)</span></a></span><span class="sep">·</span><span class="comments-link"><span>Comments Off<span class="screen-reader-text"> on News Flash- Pig updated in the Pre! site.</span></span></span></div> </header> <div class="entry-content" itemprop="articleBody"> <p>A pig assembly that includes chromosome 5 and 15 has been updated on our Pre! site. See <a href="http://pre.ensembl.org/Sus_scrofa/index.html">here</a> for further information.</p> </div> </article> <article itemscope itemtype="http://schema.org/Article" id="post-36" class="post-36 post type-post status-publish format-standard hentry category-03-other"> <header class="entry-header"> <h2 class="entry-title" itemprop="name"> <a itemprop="url" href="https://www.ensembl.info/2008/01/07/ensembl-blogging-broadens/" title="Permalink to Ensembl Blogging broadens" rel="bookmark">Ensembl Blogging broadens</a> </h2> <div class="entry-meta"><span class="entry-date"><a href="https://www.ensembl.info/2008/01/07/ensembl-blogging-broadens/" rel="bookmark"><time class="entry-date published" datetime="2008-01-07T10:06:00+00:00" itemprop="datepublished">7th January 2008</time></a></span> by <span class="author vcard" itemscope itemprop="author" itemtype="http://schema.org/Person"><a class="url fn n" href="https://www.ensembl.info/author/ewan/" rel="author" itemprop="url"><span itemprop="name">Ewan Birney</span></a></span><span class="sep">·</span><span class="comments-link"><span>Comments Off<span class="screen-reader-text"> on Ensembl Blogging broadens</span></span></span></div> </header> <div class="entry-content" itemprop="articleBody"> <p>We’re going to be experimenting with broader content generated by the Ensembl team in the Ensembl blog – at the very least by myself, Ewan Birney. So you can expect to read more about what we’re doing, the things which are coming up in the pipeline and our thoughts on how genomic infrastructure is going to evolve over time. Ensembl is a big team, with alot of components, so it is often hard to track what we’re doing and why we’ve made some decisions. This blog hopefully will keep you up to date with our progress in an informal manner.</p> </div> </article> <article itemscope itemtype="http://schema.org/Article" id="post-35" class="post-35 post type-post status-publish format-standard hentry category-04-training"> <header class="entry-header"> <h2 class="entry-title" itemprop="name"> <a itemprop="url" href="https://www.ensembl.info/2008/01/06/january-workshops/" title="Permalink to January Workshops" rel="bookmark">January Workshops</a> </h2> <div class="entry-meta"><span class="entry-date"><a href="https://www.ensembl.info/2008/01/06/january-workshops/" rel="bookmark"><time class="entry-date published" datetime="2008-01-06T19:11:00+00:00" itemprop="datepublished">6th January 2008</time></a></span> by <span class="author vcard" itemscope itemprop="author" itemtype="http://schema.org/Person"><a class="url fn n" href="https://www.ensembl.info/author/giulietta/" rel="author" itemprop="url"><span itemprop="name">Giulietta (Outreach)</span></a></span><span class="sep">·</span><span class="comments-link"><span>Comments Off<span class="screen-reader-text"> on January Workshops</span></span></span></div> </header> <div class="entry-content" itemprop="articleBody"> <p><span style="color: rgb(204, 0, 0);">Happy New Year from Ensembl!</span></p> <p>Our <span style="color: rgb(0, 0, 0);">upcoming workshops</span><span style="color: rgb(102, 51, 255);"> </span>this month are as follows:</p> <p>Browser workshop (<a href="http://www.nottingham.ac.uk/biology/">University of Nottingham</a>) Nottigham, UK 8 Jan<br />Demo at the PAGXVI Conference, San Diego, CA, USA 13 Jan (8:00-11:20 AM)<br /> * Tutorials for EBI resources presented at PAGXVI are here<br />Browser workshop (<a href="http://www.nbic.nl/">Netherlands Bioinformatics Center</a>) Nijmegen, NL 16 Jan<br />Developers workshop: the core API (<a href="http://www.nbic.nl/">Netherlands Bioinformatics Center</a>) Nijmegen, NL 17 Jan<br />Browser workshop (City of Hope) Duarte, CA, USA 18 Jan<br />Browser workshop (<a href="http://www.uoregon.edu/">University of Oregon</a>) Eugene, OR, USA 22 Jan<br />Browser workshop (<a href="http://www.ucsf.edu/">University of California, San Francisco</a>) San Francisco, CA, USA 24 Jan<br />Browser workshop (<a href="http://www.ucsc.edu/public/">University of California, Santa Cruz)</a> Santa Cruz, CA, USA 28 Jan<br />Browser workshop (<a href="http://www.ucla.edu/">University of California, Los Angeles</a>) Los Angeles, CA, USA 30 Jan</p> <p>Remember, the next Ensembl release is due 26 Feb, 2008.</p> </div> </article> <article itemscope itemtype="http://schema.org/Article" id="post-34" class="post-34 post type-post status-publish format-standard hentry category-04-training"> <header class="entry-header"> <h2 class="entry-title" itemprop="name"> <a itemprop="url" href="https://www.ensembl.info/2007/11/29/december-release-and-workshops/" title="Permalink to December Release and Workshops" rel="bookmark">December Release and Workshops</a> </h2> <div class="entry-meta"><span class="entry-date"><a href="https://www.ensembl.info/2007/11/29/december-release-and-workshops/" rel="bookmark"><time class="entry-date published" datetime="2007-11-29T01:00:00+00:00" itemprop="datepublished">29th November 2007</time></a></span> by <span class="author vcard" itemscope itemprop="author" itemtype="http://schema.org/Person"><a class="url fn n" href="https://www.ensembl.info/author/giulietta/" rel="author" itemprop="url"><span itemprop="name">Giulietta (Outreach)</span></a></span><span class="sep">·</span><span class="comments-link"><span>Comments Off<span class="screen-reader-text"> on December Release and Workshops</span></span></span></div> </header> <div class="entry-content" itemprop="articleBody"> <p>Ensembl is pleased to announce a new release (version 48) due on <span style="color: rgb(204, 0, 0);">11 December</span>. Featured in the release will be a new gene set for <span style="color: rgb(204, 0, 0);">pika</span> and the <span style="color: rgb(204, 0, 0);">mouse lemur</span>. These species will also be incorporated into homology calculations and alignments. Further upcoming features include <span style="color: rgb(204, 0, 0);">variations</span> from dbSNP128 for mouse and a new rat strain, RNB1 (from Japan). The human variation set will also feature updated data from Dr. Watson’s genome, along with updates from dbSNP128.</p> <p>Did you know about our new human and mouse databases (since release 41)? The functional genomics database (funcgen) is a first step into the world of annotating promoter and enhancer elements detected in the <a href="http://www.nature.com/nature/focus/encode/index.html">ENCODE</a> project. See these features in ContigView (‘Regulatory features’ under the ‘Features’ roll-down menu) or access the data with our API.</p> <p>Finally, a new database integrating tissue expression data and presenting it on the rat genome will be available as EURATMart.<br /><span style="color: rgb(51, 102, 255); font-weight: bold;font-size:100%;" ><br /></span><span style="color: rgb(204, 0, 0); font-weight: bold;"><span style="color: rgb(51, 102, 255);font-size:100%;" >Upcoming Workshops in December:</span></span><span style="color: rgb(204, 0, 0); font-weight: bold;"></p> <p></span><span style="color: rgb(0, 0, 0);"><span style="font-size:100%;">Module in the <a href="http://www.sanger.ac.uk/Info/workshops/uruguay-odw/">Wellcome Trust Sanger Open Door Workshop</a>, Montevideo, UY</span></span><span style="color: rgb(204, 0, 0); font-weight: bold;"> </span><span style="color: rgb(0, 0, 0);">4 Dec<br />Browser workshop (Universiti Kebangsaan Malaysia) Bangi, MY 4-5 Dec<br />Developers workshop (University of Cambridge) Cambridge, UK 17-19 Dec<br /><a href="http://www.cnio.es/ing/">Browser workshop (CNIO) </a>Madrid, ES 18 Dec<span style="color: rgb(153, 0, 0);"></p> <p>The Barcelona Supercomputing Center, site of an EBI roadshow in November:</p> <p></span></span><a onblur="try {parent.deselectBloggerImageGracefully();} catch(e) {}" href="http://3.bp.blogspot.com/_4_r6PkKtVcE/R02IoFyPf6I/AAAAAAAAAA8/7X0fSZTSRjU/s1600-h/img_barcelona.JPG"><img decoding="async" style="margin: 0pt 10px 10px 0pt; float: left; cursor: pointer;" src="http://3.bp.blogspot.com/_4_r6PkKtVcE/R02IoFyPf6I/AAAAAAAAAA8/7X0fSZTSRjU/s320/img_barcelona.JPG" alt="" id="BLOGGER_PHOTO_ID_5137912972228657058" border="0" /></a><br /><span style="color: rgb(204, 0, 0); font-weight: bold;"></p> <p></span></p> </div> </article> <article itemscope itemtype="http://schema.org/Article" id="post-33" class="post-33 post type-post status-publish format-standard hentry category-04-training"> <header class="entry-header"> <h2 class="entry-title" itemprop="name"> <a itemprop="url" href="https://www.ensembl.info/2007/11/01/new-release-and-upcoming-workshops/" title="Permalink to New Release and Upcoming Workshops" rel="bookmark">New Release and Upcoming Workshops</a> </h2> <div class="entry-meta"><span class="entry-date"><a href="https://www.ensembl.info/2007/11/01/new-release-and-upcoming-workshops/" rel="bookmark"><time class="entry-date published" datetime="2007-11-01T13:51:00+00:00" itemprop="datepublished">1st November 2007</time></a></span> by <span class="author vcard" itemscope itemprop="author" itemtype="http://schema.org/Person"><a class="url fn n" href="https://www.ensembl.info/author/giulietta/" rel="author" itemprop="url"><span itemprop="name">Giulietta (Outreach)</span></a></span><span class="sep">·</span><span class="comments-link"><span>Comments Off<span class="screen-reader-text"> on New Release and Upcoming Workshops</span></span></span></div> </header> <div class="entry-content" itemprop="articleBody"> <p><a onblur="try {parent.deselectBloggerImageGracefully();} catch(e) {}" href="http://1.bp.blogspot.com/_4_r6PkKtVcE/RynMHQOgO0I/AAAAAAAAAA0/KCwlbiw70Io/s1600-h/stowers.png"><img decoding="async" style="margin: 0pt 0pt 10px 10px; float: right; cursor: pointer;" src="http://1.bp.blogspot.com/_4_r6PkKtVcE/RynMHQOgO0I/AAAAAAAAAA0/KCwlbiw70Io/s320/stowers.png" alt="" id="BLOGGER_PHOTO_ID_5127854075724970818" border="0" /></a></p> <p>Ensembl released version 47.<span style="font-family:georgia;"> </span><span style="color: rgb(204, 0, 0); font-weight: bold;font-family:georgia;" >News highlights:</span> <span style="color: rgb(204, 0, 0); font-weight: bold;">New gene sets for mouse, human and </span><span style="font-style: italic; color: rgb(204, 0, 0); font-weight: bold;">C. elegans</span><span style="color: rgb(204, 0, 0); font-weight: bold;">.</span> A new mouse assembly (m37) is available with a new Ensembl gene set, also a new human gene set has been determined for assembly NCBI 36. WormBase 180 has been imported into the browser for <span style="font-style: italic;">C. elegans</span>. A word of warning: the FTP site has been rearranged, so please check the site for the updated format. Click<span style="color: rgb(204, 0, 0);"> </span>here<span style="color: rgb(204, 0, 0);"> </span>for more release news.</p> <p><span style="color: rgb(204, 0, 0); font-weight: bold;">New! <span style="font-style: italic;">An updated <a href="http://pre.ensembl.org/Sus_scrofa/index.html">pig</a> assembly and a new orangutan assembly in our Pre! site.</span></span><span style="font-size:130%;"><span style="font-size:85%;"></span></span><br /><span style="font-size:130%;"><span style="font-size:85%;"><br /></span></span><span style="font-weight: bold; color: rgb(51, 102, 255);font-size:100%;" ><span style="font-size:130%;"><span style="color: rgb(204, 0, 0);"><br />Upcoming workshops in November include:</span></span></span><span style="font-size:130%;"><span style="font-size:85%;"></span></span></p> <p>Developers workshop at (CSHL, US) 30 Oct to 1 Nov<br />Browser workshop (UCL/Birkbeck College, UK) 5 Nov<br />Browser workshop (CSHL, US) 11, 12 Nov<br /><a href="http://www.molmed.nl/">Browser workshop (Erasmus MC, Rotterdam)</a> 15,16 Nov</p> <p>Browser workshop and EBI overview (UNAM, Mexico) 19-21 Nov<br />EBI Roadshow (Barcelona) 26-27 Nov<span style="font-size:78%;"><br /></span><br />Have you seen our animated tutorials? Learn how to use BioMart to convert IDs here.</p> <div style="text-align: right;"><span style="font-size:85%;"><a onblur="try {parent.deselectBloggerImageGracefully();} catch(e) {}" href="http://3.bp.blogspot.com/_4_r6PkKtVcE/Ryi07AOgOxI/AAAAAAAAAAc/0WUmC9rMGHI/s1600-h/IMG_blog.jpg"><br /></a></span></div> </div> </article> <article itemscope itemtype="http://schema.org/Article" id="post-32" class="post-32 post type-post status-publish format-standard hentry category-01-release"> <header class="entry-header"> <h2 class="entry-title" itemprop="name"> <a itemprop="url" href="https://www.ensembl.info/2007/08/16/release-46-aug-2007/" title="Permalink to Release 46, Aug 2007" rel="bookmark">Release 46, Aug 2007</a> </h2> <div class="entry-meta"><span class="entry-date"><a href="https://www.ensembl.info/2007/08/16/release-46-aug-2007/" rel="bookmark"><time class="entry-date published" datetime="2007-08-16T08:25:00+01:00" itemprop="datepublished">16th August 2007</time></a></span> by <span class="author vcard" itemscope itemprop="author" itemtype="http://schema.org/Person"><a class="url fn n" href="https://www.ensembl.info/author/giulietta/" rel="author" itemprop="url"><span itemprop="name">Giulietta (Outreach)</span></a></span><span class="sep">·</span><span class="comments-link"><span>Comments Off<span class="screen-reader-text"> on Release 46, Aug 2007</span></span></span></div> </header> <div class="entry-content" itemprop="articleBody"> <p>This new release hosts an updated zebrafish assembly (Zv7) along with newly determined gene sets for zebrafish, platypus and chimpanzee.</p> <p>SequenceAlignView is a new page allowing sequences to be compared across strains (mouse and rat)/individuals (humans). Variations can be displayed in this view. See the sitemap to find the page.</p> <p>Finally, three new videos are available in the help. See the video tutorials here:<br />http://www.ensembl.org/common/Workshops_Online</p> <p>More news is available on our website. Come find out what’s new!</p> <p>Giulietta (Ensembl)</p> </div> </article> <article itemscope itemtype="http://schema.org/Article" id="post-31" class="post-31 post type-post status-publish format-standard hentry category-01-release"> <header class="entry-header"> <h2 class="entry-title" itemprop="name"> <a itemprop="url" href="https://www.ensembl.info/2007/06/20/ensembl-update-june-2007/" title="Permalink to Ensembl Update, June 2007" rel="bookmark">Ensembl Update, June 2007</a> </h2> <div class="entry-meta"><span class="entry-date"><a href="https://www.ensembl.info/2007/06/20/ensembl-update-june-2007/" rel="bookmark"><time class="entry-date published" datetime="2007-06-20T11:36:00+01:00" itemprop="datepublished">20th June 2007</time></a></span> by <span class="author vcard" itemscope itemprop="author" itemtype="http://schema.org/Person"><a class="url fn n" href="https://www.ensembl.info/author/giulietta/" rel="author" itemprop="url"><span itemprop="name">Giulietta (Outreach)</span></a></span><span class="sep">·</span><span class="comments-link"><span>Comments Off<span class="screen-reader-text"> on Ensembl Update, June 2007</span></span></span></div> </header> <div class="entry-content" itemprop="articleBody"> <p>The latest update of the Ensembl Genome Brower and associated databases occurred 13 June, 2007 (release 45). This release was coordinated with the publication of the ENCODE project in the journal Nature. The first stage of this project focused on an in-depth view of 1% of the genome, contributing to a set of regulatory features that has now been incorporated into Ensembl, accessible in ContigView.</p> <p>BioMart 0.6 has just been released, including an improved layout and response times for result viewing. In addition, the query can be exported in Perl API format<br /> via the new ‘Perl’ button.</p> <p>Those are the major updates at this time.</p> </div> </article> <nav class="navigation pagination" aria-label="Posts"> <h2 class="screen-reader-text">Posts navigation</h2> <div class="nav-links"><a class="prev page-numbers" href="https://www.ensembl.info/page/68/"><i class="fa fa-chevron-left"></i></a> <a class="page-numbers" href="https://www.ensembl.info/">1</a> <span class="page-numbers dots">…</span> <a class="page-numbers" href="https://www.ensembl.info/page/68/">68</a> <span aria-current="page" class="page-numbers current">69</span></div> </nav> </div> <footer class="site-info" itemscope itemtype="http://schema.org/WPFooter"> <a href="http://wordpress.org/" title="Semantic Personal Publishing Platform">Proudly powered by WordPress</a>. 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