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	<title>modENCODE Blog &#187; sergio</title>
	<atom:link href="http://blog.modencode.org/author/sergio/feed" rel="self" type="application/rss+xml" />
	<link>http://blog.modencode.org</link>
	<description>weblog of the modENCODE Data Coordination Center</description>
	<lastBuildDate>Wed, 01 Feb 2012 16:46:47 +0000</lastBuildDate>
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			<item>
		<title>modMine release 28</title>
		<link>http://blog.modencode.org/modmine-release-28</link>
		<comments>http://blog.modencode.org/modmine-release-28#comments</comments>
		<pubDate>Wed, 01 Feb 2012 16:46:47 +0000</pubDate>
		<dc:creator>sergio</dc:creator>
				<category><![CDATA[Notices]]></category>
		<category><![CDATA[modMine]]></category>
		<category><![CDATA[announcements]]></category>
		<category><![CDATA[Karpen]]></category>
		<category><![CDATA[release]]></category>

		<guid isPermaLink="false">http://blog.modencode.org/?p=778</guid>
		<description><![CDATA[modMine release 28 
Release 28 consists of 1835 submissions, organised in  72     experiments divided in 12 categories.
It features an improved overlapping feature search.
]]></description>
			<content:encoded><![CDATA[<p><strong>modMine release 28 </strong></p>
<p>Release 28 consists of 1835 submissions, organised in  72     experiments divided in 12 categories.</p>
<p>It features an improved overlapping feature search.</p>
]]></content:encoded>
			<wfw:commentRss>http://blog.modencode.org/modmine-release-28/feed</wfw:commentRss>
		<slash:comments>0</slash:comments>
		</item>
		<item>
		<title>modMine release 27</title>
		<link>http://blog.modencode.org/modmine-release-27</link>
		<comments>http://blog.modencode.org/modmine-release-27#comments</comments>
		<pubDate>Wed, 07 Dec 2011 18:52:14 +0000</pubDate>
		<dc:creator>sergio</dc:creator>
				<category><![CDATA[Notices]]></category>
		<category><![CDATA[modMine]]></category>
		<category><![CDATA[announcements]]></category>
		<category><![CDATA[data freeze]]></category>
		<category><![CDATA[release]]></category>

		<guid isPermaLink="false">http://blog.modencode.org/?p=763</guid>
		<description><![CDATA[modMine release 27 
Release 27 of modMine contains all the submissions validated by the    end of November 2011 (corresponding to the submission freeze of the 31st of October). Release 27 incorparates 1765 submissions, organised in 72     experiments which in turn are divided in 12 categories.
There are 1224 fly submissions [...]]]></description>
			<content:encoded><![CDATA[<p><strong>modMine release 27 </strong></p>
<p>Release 27 of modMine contains all the submissions validated by the    end of November 2011 (corresponding to the submission freeze of the 31st of October). Release 27 incorparates 1765 submissions, organised in 72     experiments which in turn are divided in 12 categories.</p>
<p>There are 1224 fly submissions (1201 D. melanogaster) and 541 concern C.  elegans.</p>
]]></content:encoded>
			<wfw:commentRss>http://blog.modencode.org/modmine-release-27/feed</wfw:commentRss>
		<slash:comments>0</slash:comments>
		</item>
		<item>
		<title>modMine release 26</title>
		<link>http://blog.modencode.org/743</link>
		<comments>http://blog.modencode.org/743#comments</comments>
		<pubDate>Fri, 28 Oct 2011 15:39:29 +0000</pubDate>
		<dc:creator>sergio</dc:creator>
				<category><![CDATA[modMine]]></category>
		<category><![CDATA[announcements]]></category>
		<category><![CDATA[MacAlpine]]></category>
		<category><![CDATA[release]]></category>
		<category><![CDATA[Snyder]]></category>

		<guid isPermaLink="false">http://blog.modencode.org/?p=743</guid>
		<description><![CDATA[modMine release 26 
Release 26 of modMine contains all the submissions of release 25, with the addition of 3 submissions for the MacAlpine project (D. melanogaster)  and 2 for the Snyder one (C. elegans).
Release 26 now contains links to orthologues (human, mouse, rat)  for both worm and fly. Lists of submissions present more detailed information on [...]]]></description>
			<content:encoded><![CDATA[<p><strong>modMine release 26 </strong></p>
<p>Release 26 of modMine contains all the submissions of release 25, with the addition of 3 submissions for the MacAlpine project (D. melanogaster)  and 2 for the Snyder one (C. elegans).</p>
<p>Release 26 now contains links to orthologues (human, mouse, rat)  for both worm and fly. Lists of submissions present more detailed information on the grouped submissions.</p>
]]></content:encoded>
			<wfw:commentRss>http://blog.modencode.org/743/feed</wfw:commentRss>
		<slash:comments>0</slash:comments>
		</item>
		<item>
		<title>modMine release 25</title>
		<link>http://blog.modencode.org/r25</link>
		<comments>http://blog.modencode.org/r25#comments</comments>
		<pubDate>Mon, 26 Sep 2011 11:22:36 +0000</pubDate>
		<dc:creator>sergio</dc:creator>
				<category><![CDATA[Fly Data Release]]></category>
		<category><![CDATA[Notices]]></category>
		<category><![CDATA[Worm Data Release]]></category>
		<category><![CDATA[data]]></category>
		<category><![CDATA[modMine]]></category>
		<category><![CDATA[announcements]]></category>
		<category><![CDATA[data freeze]]></category>
		<category><![CDATA[release]]></category>

		<guid isPermaLink="false">http://blog.modencode.org/?p=734</guid>
		<description><![CDATA[modMine release 25 
Release 25 of modMine contains all the submissions validated by the   end of August 2011. There are 1664 submissions, organised in 69    experiments which in turn are divided in 12 categories.
There are 1185 submissions regarding D. melanogaster, 464 concern C. elegans, and there is also a small number [...]]]></description>
			<content:encoded><![CDATA[<p><strong>modMine release 25 </strong></p>
<p>Release 25 of modMine contains all the submissions validated by the   end of August 2011. There are 1664 submissions, organised in 69    experiments which in turn are divided in 12 categories.</p>
<p>There are 1185 submissions regarding D. melanogaster, 464 concern C. elegans, and there is also a small number of submssions for other Drosophila species:</p>
<table style="height: 108px;" border="0" cellspacing="0" cellpadding="0" width="118">
<tbody id="summary_table">
<tr>
<td>D. mojavensis</td>
<td>4</td>
</tr>
<tr>
<td>D. pseudoobscura</td>
<td>4</td>
</tr>
<tr>
<td>D. simulans</td>
<td>4</td>
</tr>
<tr>
<td>D. ananassae</td>
<td>1</td>
</tr>
<tr>
<td>D. virilis</td>
<td>1</td>
</tr>
<tr>
<td>D. yakuba</td>
<td>1</td>
</tr>
</tbody>
</table>
<p><strong>New in this release</strong>.</p>
<p><strong>- Ensembl Compara</strong></p>
<p>The Ensembl Compara data set has been used to get homologues information.<strong><br />
</strong></p>
<p><strong>- Easier exploration of other mines</strong></p>
<p>Links to other mines (RatMine, FlyMine, metabolicMine,ZFINMine, YeastMine)  are available on reposrt and list report pages and allows exploration of orthologues genes.</p>
<p><strong><br />
</strong></p>
<p><strong><br />
</strong></p>
]]></content:encoded>
			<wfw:commentRss>http://blog.modencode.org/r25/feed</wfw:commentRss>
		<slash:comments>0</slash:comments>
		</item>
		<item>
		<title>modMine release 24</title>
		<link>http://blog.modencode.org/modmine-release-24</link>
		<comments>http://blog.modencode.org/modmine-release-24#comments</comments>
		<pubDate>Tue, 26 Jul 2011 14:36:49 +0000</pubDate>
		<dc:creator>sergio</dc:creator>
				<category><![CDATA[Notices]]></category>
		<category><![CDATA[data]]></category>
		<category><![CDATA[modMine]]></category>
		<category><![CDATA[announcements]]></category>
		<category><![CDATA[release]]></category>

		<guid isPermaLink="false">http://blog.modencode.org/?p=725</guid>
		<description><![CDATA[modMine release 24 
Release 24 of modMine contains all the submissions validated by the  end of June 2011. There are 1504 submissions, organised in 61   experiments which in turn are divided in 12 categories.
New in this release.
- A new way of managing users&#8217; lists when transferring them from one release to the next [...]]]></description>
			<content:encoded><![CDATA[<p><strong>modMine release 24 </strong></p>
<p>Release 24 of modMine contains all the submissions validated by the  end of June 2011. There are 1504 submissions, organised in 61   experiments which in turn are divided in 12 categories.</p>
<p><strong>New in this release</strong>.</p>
<p><strong>- A new way of managing users&#8217; lists</strong> when transferring them from one release to the next one. The new system makes transparent to the user any update made necessary by the changes on elements of the list in the model organism databases (FlyBase or WormBase).</p>
<p>Usually there will be no changes and no action will need to be  taken.  However, if a user’s list needs upgrading, these simple steps need to be followed:</p>
<ul>
<li>log in</li>
<li>go  to the “My Mine” section of modMine</li>
<li>check the status of your lists by visiting the “Lists” page (<a href="http://www.flymine.org/query/mymine.do">http://intermine.modencode.org/query/mymine.do)</a>.</li>
<li>Click on the “Upgrade” links that you find in the last column of the table and resolve duplications and conflicts.</li>
</ul>
<p>The new system allows also a much shorter downtime of modMine when the release is changed.</p>
<p><strong>- Sequence features can be exported as a file or sent to Galaxy in UCSC BED format</strong></p>
<p><strong>- Data labels and column names are configurable now and not tied to the database field names.<br />
</strong></p>
]]></content:encoded>
			<wfw:commentRss>http://blog.modencode.org/modmine-release-24/feed</wfw:commentRss>
		<slash:comments>0</slash:comments>
		</item>
		<item>
		<title>mailing list</title>
		<link>http://blog.modencode.org/mailing-list</link>
		<comments>http://blog.modencode.org/mailing-list#comments</comments>
		<pubDate>Thu, 23 Jun 2011 15:26:07 +0000</pubDate>
		<dc:creator>sergio</dc:creator>
				<category><![CDATA[General]]></category>
		<category><![CDATA[Notices]]></category>
		<category><![CDATA[announcements]]></category>

		<guid isPermaLink="false">http://blog.modencode.org/?p=718</guid>
		<description><![CDATA[The mailing list announce@modencode.org will receive notification of any new posting to the modENCODE blog.
If you wish to subscribe (or unsubscribe) please go to the page
http://mailman.modencode.org/mailman/listinfo/announce
and follow the instructions.
]]></description>
			<content:encoded><![CDATA[<p>The mailing list <strong>announce@modencode.org</strong> will receive notification of any new posting to the modENCODE blog.</p>
<p>If you wish to subscribe (or unsubscribe) please go to the page</p>
<p><a href="http://mailman.modencode.org/mailman/listinfo/announce">http://mailman.modencode.org/mailman/listinfo/announce</a></p>
<p>and follow the instructions.</p>
]]></content:encoded>
			<wfw:commentRss>http://blog.modencode.org/mailing-list/feed</wfw:commentRss>
		<slash:comments>0</slash:comments>
		</item>
		<item>
		<title>modMine release 23.1</title>
		<link>http://blog.modencode.org/modmine-release-23-1</link>
		<comments>http://blog.modencode.org/modmine-release-23-1#comments</comments>
		<pubDate>Tue, 21 Jun 2011 15:13:41 +0000</pubDate>
		<dc:creator>sergio</dc:creator>
				<category><![CDATA[modMine]]></category>
		<category><![CDATA[announcements]]></category>
		<category><![CDATA[release]]></category>

		<guid isPermaLink="false">http://blog.modencode.org/?p=697</guid>
		<description><![CDATA[The new modmine release 23.1 presents a new displayer for the expression heatmaps. The new displayer uses canvasXpress to perform clustering operations on the data.
The new release is built on the same data of release 23.
]]></description>
			<content:encoded><![CDATA[<p>The new modmine release 23.1 presents a new displayer for the expression heatmaps. The new displayer uses <em><a href="http://www.canvasxpress.org/">canvasXpress</a> </em>to perform clustering operations on the data.</p>
<p>The new release is built on the same data of release 23.</p>
]]></content:encoded>
			<wfw:commentRss>http://blog.modencode.org/modmine-release-23-1/feed</wfw:commentRss>
		<slash:comments>0</slash:comments>
		</item>
		<item>
		<title>modMine release 23</title>
		<link>http://blog.modencode.org/modmine-release-23</link>
		<comments>http://blog.modencode.org/modmine-release-23#comments</comments>
		<pubDate>Sat, 21 May 2011 13:33:25 +0000</pubDate>
		<dc:creator>sergio</dc:creator>
				<category><![CDATA[Fly Data Release]]></category>
		<category><![CDATA[Notices]]></category>
		<category><![CDATA[Worm Data Release]]></category>
		<category><![CDATA[modMine]]></category>
		<category><![CDATA[annotation]]></category>
		<category><![CDATA[announcements]]></category>
		<category><![CDATA[release]]></category>

		<guid isPermaLink="false">http://blog.modencode.org/?p=685</guid>
		<description><![CDATA[modMine release 23 
Release 23 of modMine contains all the submissions validated by the end of April 2011. There are 1451 submissions, organised in 61  experiments which in turn are divided in 14 categories. The break down  of the number of submissions in term of organism is the following:



D. melanogaster
1037


C. elegans
410


D. mojavensis
2


D. pseudoobscura
2



New in [...]]]></description>
			<content:encoded><![CDATA[<p><strong>modMine release 23 </strong></p>
<p>Release 23 of modMine contains all the submissions validated by the end of April 2011. There are 1451 submissions, organised in 61  experiments which in turn are divided in 14 categories. The break down  of the number of submissions in term of organism is the following:</p>
<table style="height: 83px;" border="0" cellspacing="0" cellpadding="0" width="150">
<tbody id="summary_table">
<tr>
<td>D. melanogaster</td>
<td>1037</td>
</tr>
<tr>
<td>C. elegans</td>
<td>410</td>
</tr>
<tr>
<td>D. mojavensis</td>
<td>2</td>
</tr>
<tr>
<td>D. pseudoobscura</td>
<td>2</td>
</tr>
</tbody>
</table>
<p>New in this release:</p>
<ul>
<li>All the worm data has been updated to genomic version 220</li>
<li>New display for the content pages, allowing a more compact overview of the data available</li>
</ul>
]]></content:encoded>
			<wfw:commentRss>http://blog.modencode.org/modmine-release-23/feed</wfw:commentRss>
		<slash:comments>0</slash:comments>
		</item>
		<item>
		<title>modMine archive</title>
		<link>http://blog.modencode.org/modmine-archive</link>
		<comments>http://blog.modencode.org/modmine-archive#comments</comments>
		<pubDate>Thu, 12 May 2011 14:33:33 +0000</pubDate>
		<dc:creator>sergio</dc:creator>
				<category><![CDATA[General]]></category>
		<category><![CDATA[Notices]]></category>
		<category><![CDATA[announcements]]></category>
		<category><![CDATA[modMine]]></category>
		<category><![CDATA[release]]></category>

		<guid isPermaLink="false">http://blog.modencode.org/?p=680</guid>
		<description><![CDATA[Past releases of modMine are temporarily unavailable because of works in the computer room. They should be back on line by 26 May 2011. 
]]></description>
			<content:encoded><![CDATA[<p>Past releases of modMine are temporarily unavailable because of works in the computer room. They should be back on line by 26 May 2011. </p>
]]></content:encoded>
			<wfw:commentRss>http://blog.modencode.org/modmine-archive/feed</wfw:commentRss>
		<slash:comments>0</slash:comments>
		</item>
		<item>
		<title>modENCODE community survey</title>
		<link>http://blog.modencode.org/modencode-community-survey</link>
		<comments>http://blog.modencode.org/modencode-community-survey#comments</comments>
		<pubDate>Wed, 27 Apr 2011 13:07:16 +0000</pubDate>
		<dc:creator>sergio</dc:creator>
				<category><![CDATA[General]]></category>
		<category><![CDATA[Notices]]></category>
		<category><![CDATA[announcements]]></category>
		<category><![CDATA[feedback]]></category>

		<guid isPermaLink="false">http://blog.modencode.org/?p=672</guid>
		<description><![CDATA[Please help us make the datasets distributed by the modENCODE project more useful to you:
take the modENCODE community survey!
]]></description>
			<content:encoded><![CDATA[<p>Please help us make the datasets distributed by the modENCODE project more useful to you:<br />
take the <a href="https://www.surveymonkey.com/s/V7V5NP5">modENCODE community survey</a>!</p>
]]></content:encoded>
			<wfw:commentRss>http://blog.modencode.org/modencode-community-survey/feed</wfw:commentRss>
		<slash:comments>0</slash:comments>
		</item>
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