Gendoo - Gene, Disease Features Ontology-based Overview System

<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd"> <html lang="ja"> <head> <title>Gendoo - Gene, Disease Features Ontology-based Overview System</title> <meta http-equiv="Content-Type" content="text/html; charset=utf-8"> <link rel="stylesheet" type="text/css" href="gendoo.css"> <style type="text/css">  </style> </head> <body> <div class="body"> <div class="header"> <h1> <img src="images/gendoo.logo-s.png" width=222 height=51 alt="Gendoo"> </h1> </div> <div class="titleArea"> <div class="title"> <br><br><br><br><br><br> <span style="font-size: 250%;">Gendoo</span><br><br> Gene, Disease Features Ontology-based Overview System </div>  </div> <div class="body2"> <p style="text-align: right;">Ver. 2.206 ('12-04-06)</p> <p> <span style="font-weight: bold;">Gendoo</span>  provides keywords including diseases, drugs and biological phenomena related to genes and diseases of interests. </p> <br><br> <div class="search"> <h2>Gene → ...</h2> <form method="GET" action="cgi-bin/gendoo.cgi"> <p> Gene → Candidate → Related diseases, drugs, ... </p> Gene ID(s)/Gene Names:<br> <textarea name="genename" rows="10" cols="30"></textarea><br><br>  Species: <select name="taxonomy"> <option value="human" selected>human</option> <option value="mouse">mouse</option> <option value="rat">rat</option> <option value="silkworm">silkworm</option> <option value="arabi">Arabidopsis</option> <option value="synecho">Synechocystis</option> <option value="anabaena">Anabaena</option> <option value="meso">Mesorhizobium</option> <option value="miyako">miyakogusa</option>  </select> <br><br> <input name="submit" type="submit" value="Search"> <input name="reset" type="reset" value="Reset"> </form> <br><br> <h2>Disease (OMIM) → ...</h2> <form method="GET" action="cgi-bin/gendoo.cgi"> <p> Disease (OMIM) → Candidate → Related drugs, tissues, biological phenomena (MeSH), ... </p> OMIM ID(s)/Disease Names (OMIM title):<br> <textarea name="omimid" rows="10" cols="30"></textarea><br><br>  <input name="submit" type="submit" value="Search"> <input name="reset" type="reset" value="Reset"> <p> - <a href="v1/gendoo.omim.html">Old version</a> is also available. </p> </form> <br><br> <h2>Keywords (MeSH) → ...</h2> <form method="GET" action="cgi-bin/gendoo.cgi"> <p> MeSH (keywords of diseases, drugs, and so on) → Candidate → Related genes, diseases (OMIM) </p> Keyword (MeSH term): <input name="mesh" type="text" size="50"> <br><br> Species: <select name="taxonomy"> <option value="human" selected>human</option> <option value="mouse">mouse</option> <option value="rat">rat</option> <option value="arabi">Arabidopsis</option> <option value="synecho">Synechocystis</option> <option value="anabaena">Anabaena</option> <option value="meso">Mesorhizobium</option> <option value="miyako">miyakogusa</option> </select> <br><br> <input name="submit" type="submit" value="Search"> <input name="reset" type="reset" value="Reset"> </form> </div> <br><br> <div class="help"> <hr> <h2>Help</h2> <ul> <li> <a href="help/help-ja.html">Japanese version</a> <li> <a href="help/help-en.html">English version</a> </ul> </div> <hr> <div class="example"> <h2>Examples</h2> <ul> <li> <a href="cgi-bin/gendoo.cgi?geneid=351&taxonomy=human">Example 1</a>: Diseases and drugs related to <span style="font-style: italic;">APP</span> (amyloid precursor protein) [Gene ID: 351] <li> <a href="cgi-bin/gendoo.cgi?taxonomy=human&omimid=222100&omimid=125853">Example 2</a>: Difference and similarity between type 1 and type 2 diabetes [OMIM ID: 222100, 125853]  </ul> </div> <hr> <div class="news"> <h2>News, Announcements, Discussion, ...</h2> <ul> <li> <a href="/reports/">Gendoo Reports</a>: The blog of Gendoo <li> Ver. 2.206 ('12-04-06): The 2012 version of allelic and non-allelic heterogeneity data are available. <li> Ver. 2.205 ('11-01-26): The 2011 version of allelic and non-allelic heterogeneity data are available. <li> Ver. 2.204 ('10-03-09): Japanese disease terms become acceptable. <li> Ver. 2.203 ('10-02-26): The 2010 version of allelic and non-allelic heterogeneity data are available. <li> Ver. 2.202 ('10-02-08): "Check All" button is added to candidate genes/diseases lists. <li> Ver. 2.201 ('09-09-17): Japanese translations of MeSH terms are added to MeSH tree. </ul> </div> <hr> <div class="download"> <h2>Association data</h2> <ul> <li> score.[gene|omim].[<span style="font-style: italic;">type</span>].[<span style="font-style: italic;">category</span>].tab <ul> <li> *.A.tab: Anatomy <li> *.B.tab: Organisms <li> *.C.tab: Diseases <li> *.D.tab: Drugs and chemicals <li> *.G.tab: Biological phenomena <li> *.S.tab: Substance Names </ul> <p> Association files are tab-separated text data containing Gene/OMIM ID, score (information gain), <span style="font-style: italic">p</span>-value and MeSH ID. </p> <li> <a href="data/id2name.human.tab">Gene names and aliases</a> (2009/1/8 ver.) <li> <a href="data/omim.name.tab">Disease names and aliases</a> (2009/1/8 ver.) <li> <a href="data/mesh.term2tree.tab">MeSH: IDs, terms and tree IDs</a> (2009 ver.) <li> <a href="data/subst.term2table.tab">Substance Names: IDs and terms</a> (2008 ver.) <li> <a href="data/">All file list</a> </ul> </div> <hr> <div class="addition"> <h2>Further data</h2> <ul> <li> <a href="resource/allelic.html">Allelic heterogeneity</a>: The list of genes and their related diseases (2011-1-8) --- Archive: <a href="resource/allelic.08.html">2008</a> <a href="resource/allelic.09.html">2009</a> <a href="resource/allelic.10.html">2010</a> <a href="resource/allelic.11.html">2011</a> <li> <a href="resource/non-allelic.html">Non-allelic heterogeneity</a>: The list of diseases and their related genes (2011-1-8) --- Archive: <a href="resource/non-allelic.08.html">2008</a> <a href="resource/non-allelic.09.html">2009</a> <a href="resource/non-allelic.10.html">2010</a> <a href="resource/non-allelic.11.html">2011</a> <br><br> <li>MeSH tree <ul> <li> <a href="resource/meshtree.a.html">Anatomy</a> (+<a href="resource/meshtree.ja.a.html">日本語</a>) <li> <a href="resource/meshtree.b.html">Organisms</a> (+<a href="resource/meshtree.ja.b.html">日本語</a>) <li> <a href="resource/meshtree.c.html">Diseases</a> (+<a href="resource/meshtree.ja.c.html">日本語</a>) <li> <a href="resource/meshtree.d.html">Chemicals and Drugs</a> (+<a href="resource/meshtree.ja.d.html">日本語</a>) <li> <a href="resource/meshtree.g.html">Biological Sciences</a> (+<a href="resource/meshtree.ja.g.html">日本語</a>) </ul> </ul> </div> <hr> <div class="ref"> <h2>References</h2> <p> Nakazato, T., Takinaka, T., Mizuguchi, H., Matsuda, H., Bono, H., and Asogawa, M.,<br> BioCompass: A novel functional inference tool that utilizes MeSH hierarchy to analyze groups of genes,<br> <span style="font-style: italic;">In Silico Biology</span>, <span style="font-weight: bold;">8</span>(1): 53-61, 2008. <a href="http://www.ncbi.nlm.nih.gov/pubmed/18430990">[PubMed]</a> <a href="http://www.bioinfo.de/isb/2007/08/0006/">[Full Text]</a> </p> <p> Nakazato, T., Bono, H., Matsuda, H., and Takagi, T.,<br> Gendoo: Functional profiling of gene and disease features using MeSH vocabulary,<br> <span style="font-style: italic;">Nucleic Acids Research</span>, <span style="font-weight: bold;">37</span>(Suppl. 2) (Web Server Issue):W166-W169 2009. <a href="http://www.ncbi.nlm.nih.gov/pubmed/19498079">[PubMed]</a> <a href="http://nar.oxfordjournals.org/cgi/content/full/37/suppl_2/W166">[Full Text]</a> </p> </div> <hr> <div class="credit"> <p> <a rel="license" href="http://creativecommons.org/licenses/by/2.1/jp/"><img alt="Creative Commons License" style="border-width:0" src="http://i.creativecommons.org/l/by/2.1/jp/88x31.png" /></a><br />この作品は、<a rel="license" href="http://creativecommons.org/licenses/by/2.1/jp/">クリエイティブ・コモンズ・ライセンス</a>の下でライセンスされています。<br /> This work is licensed under a <a rel="license" href="http://creativecommons.org/licenses/by/2.1/jp/deed.en">Creative Commons Attribution 2.1 Japan License</a>. </p> <p style="text-align: right;"> Developed by Takeru Nakazato < nakazato at dbcls rois ac jp > </p> <p style="text-align: right;"> <a href="http://dbcls.rois.ac.jp/">Database Center for Life Science</a><br> <a href="http://lifesciencedb.jp/">lifesciencedb.jp</a> </p> </div> </div> </div> </body> </html>

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Gendoo - Gene, Disease Features Ontology-based Overview System