Diff
Modified: branches/wf4ever/app/views/research_objects/_credits.rhtml (3283 => 3284)
--- branches/wf4ever/app/views/research_objects/_credits.rhtml 2013-01-04 12:50:25 UTC (rev 3283)
+++ branches/wf4ever/app/views/research_objects/_credits.rhtml 2013-01-04 12:50:35 UTC (rev 3284)
@@ -2,9 +2,12 @@
<h3 class="type">Authors</h3>
<div class="body">
<ul>
- <li><span class="authoredBy">Khalid Belhajjame</span>
+ <li><span class="authoredBy">Kristina Hettne</span>
<span class="authoredOn">(last authored on 2012-12-24 18:40)</span</li>
- </li>
+ </li>
+ <li><span class="authoredBy">Marco Roos</span>
+ <span class="authoredOn">(last authored on 2012-10-15 11:24)</span</li>
+ </li>
</ul>
</div>
</div>
@@ -15,8 +18,6 @@
<ul>
<li><span class="contributedBy">Stian Soiland-Reyes</span>
<span class="contributedOn">(last contributed on 2012-11-10 11:21)</span</li>
- <li><span class="contributedBy">Fred Bloggs</span>
- <span class="contributedOn">(last contributed on 2011-09-15 03:40)</span</li>
</ul>
</div>
</div>
\ No newline at end of file
Modified: branches/wf4ever/app/views/research_objects/_description.rhtml (3283 => 3284)
--- branches/wf4ever/app/views/research_objects/_description.rhtml 2013-01-04 12:50:25 UTC (rev 3283)
+++ branches/wf4ever/app/views/research_objects/_description.rhtml 2013-01-04 12:50:35 UTC (rev 3284)
@@ -1,12 +1,19 @@
<div class="annotation">
<h3 class="type">Description</h3>
<div class="body">
- This research object shows a Hello World workflow. This is particularly interesting because
- it is difficult to create a much simpler research object, but still expose most of the RO
- functionality.
+<p>
+ The scientific experiment represented by this research object pertains to the functional annotation of SNPs using next-generation text mining technology and curated metabolic pathway databases. This study characterizes a set of SNPs from an article that can be seen as a golden standard when it comes to characterizing genetic variation in human metabolism [1]. To validate the results from the research object, the RO compares the text mining generated annotation with annotations retieved from the Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway database [2], and the annotations as described in the gold standard publication.
+</p><p>
+We hypothesize that SNPs can be functionally annotated using curated metabolic pathway databases and next-generation text mining, and that new hypotheses regarding the role of SNPs in biological processes relevant for human health can be formulated using these functional annotations.
+</p><p>
+All the data involved in the characterization of the SNPs are stored in local relational databases (named "Anni databases") and accessed via a set of web services (named "Anni web services"). The results are stored in local output files.
+</p>
</div>
+ <div class="more">
+ More in <a href=""
+ </div>
<div class="provenance">
- <span class="authoredBy">Stian Soiland-Reyes</span> on
+ <span class="authoredBy">Kristina Hettne</span> on
<span class="authoredOn">2012-12-24 15:04</span>
</div>
</div>
Modified: branches/wf4ever/app/views/research_objects/_diagram.rhtml (3283 => 3284)
--- branches/wf4ever/app/views/research_objects/_diagram.rhtml 2013-01-04 12:50:25 UTC (rev 3283)
+++ branches/wf4ever/app/views/research_objects/_diagram.rhtml 2013-01-04 12:50:35 UTC (rev 3284)
@@ -1,11 +1,10 @@
<div class="annotation">
- <h3 class="type">Research diagram</h3>
+ <h3 class="type">Research overview</h3>
<div class="body">
- <div class="todo">What to call this section?</div>
- <img src="" />
+ <img src="" width="450" />
</div>
<div class="provenance">
- <span class="authoredBy">Pique</span> on
+ <span class="authoredBy">Kristina</span> on
<span class="authoredOn">2012-12-24 15:04</span>
</div>
</div>
Modified: branches/wf4ever/app/views/research_objects/_evolution.rhtml (3283 => 3284)
--- branches/wf4ever/app/views/research_objects/_evolution.rhtml 2013-01-04 12:50:25 UTC (rev 3283)
+++ branches/wf4ever/app/views/research_objects/_evolution.rhtml 2013-01-04 12:50:35 UTC (rev 3284)
@@ -5,60 +5,64 @@
</h2>
<a name="version_history"></a>
- <p>In chronological order:</p>
+ <p>In reverse chronological order:</p>
-<ol class="version_history">
- <li>
+<ol class="version_history" reversed="reversed">
+
+ <li>
<div class="title">
- <a href="" PDB entries in Jmol for hits found for HIV in Bio2RDF</a>
+ <a href="" annotation of single nucleotide polymorphisms (SNPs) using next-generation text mining and curated metabolic pathway databases</a>
</div>
<div class="metadata">
-
<p>
- Created
- by <a href="" title="">Egon Willighagen</a>
- on Sunday 11 October 2009 @ 21:25:58 (GMT)
+ Created
+ by <a href="" title="header=[] body=[Kristina Hettne] cssheader=[boxoverTooltipHeader] cssbody=[boxoverTooltipBody] delay=[200]">Kristina Hettne</a>
+ on Wednesday 23 June 2012 @ 20:20:40 (GMT)
</p>
+ <p>
+ </p><div>Revision comment:</div>
+ <div class="comment">
+ <p> Updated title and description</p>
+ </div>
+ <p></p>
</div>
- </li>
+ </li>
+
<li>
<div class="title">
- <a href="" PDB entries in Jmol for hits found for HIV in Bio2RDF</a>
+ <a href="" annotations</a>
</div>
<div class="metadata">
<p>
Created
- by <a href="" title="header=[] body=[Egon Willighagen] cssheader=[boxoverTooltipHeader] cssbody=[boxoverTooltipBody] delay=[200]">Egon Willighagen</a>
- on Sunday 14 March 2010 @ 21:26:05 (GMT)
+ by <a href="" title="header=[] body=[Kristina Hettne] cssheader=[boxoverTooltipHeader] cssbody=[boxoverTooltipBody] delay=[200]">Kristina Hettne</a>
+ on Sunday 14 March 2012 @ 21:26:05 (GMT)
</p>
<p>
</p><div>Revision comment:</div>
<div class="comment">
- <p>Version for Bioclipse 2.4. Use version 1 for Bioclipse 2.2.</p>
+ <p>Include workflow run provenance.</p>
</div>
<p></p>
</div>
</li>
-
- <li>
+
+ <li>
<div class="title">
- <a href="" PDB entries in Jmol for hits found for HIV in Bio2RDF</a>
+ <a href="" annotations</a>
</div>
<div class="metadata">
+
<p>
Created
- by <a href="" title="header=[] body=[Egon Willighagen] cssheader=[boxoverTooltipHeader] cssbody=[boxoverTooltipBody] delay=[200]">Egon Willighagen</a>
- on Wednesday 23 June 2010 @ 20:20:40 (GMT)
+ by <a href="" title="">Kristina Hettne</a>
+ on Sunday 11 October 2012 @ 21:25:58 (GMT)
</p>
- <p>
- </p><div>Revision comment:</div>
- <div class="comment">
- <p> Updated URI for Bio2RDF SPARQL end point.</p>
- </div>
- <p></p>
</div>
- </li>
+ </li>
+
+
</ol>
</div>
\ No newline at end of file
Modified: branches/wf4ever/app/views/research_objects/_title.rhtml (3283 => 3284)
--- branches/wf4ever/app/views/research_objects/_title.rhtml 2013-01-04 12:50:25 UTC (rev 3283)
+++ branches/wf4ever/app/views/research_objects/_title.rhtml 2013-01-04 12:50:35 UTC (rev 3284)
@@ -1,8 +1,9 @@
<div class="annotation">
<span class="type">Title:</span>
- <span class="title">Hello World</span>
+ <span class="title">Functional annotation of single nucleotide polymorphisms (SNPs) using next-generation text mining and curated metabolic pathway databases
+</span>
<div class="provenance">
- <span class="authoredBy">Stian Soiland-Reyes</span> on
+ <span class="authoredBy">Kristina Hettne</span> on
<span class="authoredOn">2012-05-14 17:05</span>
</div>
</div>
\ No newline at end of file
Modified: branches/wf4ever/app/views/research_objects/_versions.rhtml (3283 => 3284)
--- branches/wf4ever/app/views/research_objects/_versions.rhtml 2013-01-04 12:50:25 UTC (rev 3283)
+++ branches/wf4ever/app/views/research_objects/_versions.rhtml 2013-01-04 12:50:35 UTC (rev 3284)
@@ -63,7 +63,7 @@
<span>02/09/11 @ 11:43:00</span>
<b>by:</b>
- <span><a href="" title="header=[] body=[Paul Fisher] cssheader=[boxoverTooltipHeader] cssbody=[boxoverTooltipBody] delay=[200]">Paul Fisher</a></span>
+ <span><a href="" title="header=[] body=[Kristina Hettne] cssheader=[boxoverTooltipHeader] cssbody=[boxoverTooltipBody] delay=[200]">Kristina Hettne</a></span>
<span> | </span>
@@ -77,7 +77,7 @@
<span>02/09/11 @ 11:44:57</span>
<b>by:</b>
- <span><a href="" title="">Paul Fisher</a></span>
+ <span><a href="" title="">Kristina Hettne</a></span>
</p>
Added: branches/wf4ever/public/images/mockup/schema-kristina.png (0 => 3284)
--- branches/wf4ever/public/images/mockup/schema-kristina.png (rev 0)
+++ branches/wf4ever/public/images/mockup/schema-kristina.png 2013-01-04 12:50:35 UTC (rev 3284)
@@ -0,0 +1,328 @@
+\x89PNG
+
+
+IHDR "