Diff for /biobar/www/Databases.html between versions 1.13 and 1.14

version 1.13, 2005/02/04 12:52:58 version 1.14, 2005/03/09 16:34:58
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 <h3>Databases currently included in biobar</h3>  <h3>Databases currently included in biobar</h3>
   
 <p><a href="http://biobar.mozdev.org/installation.html">biobar  <p><a href="http://biobar.mozdev.org/installation.html">biobar
1.2.3</a> provides browsing and searching access to the following1.3</a> provides browsing and searching access to the following
 biological databases.<br>  biological databases.<br>
 </p>  </p>
<p>The latest inclusions ar<span style="text-decoration: underline;"><span
<p>The latest inclusions are <a href= style="text-decoration: underline;">e</span></span> <a
"http://www.amaze.ulb.ac.be/">aMAZE</a> and <a href= href="http://www.arabidopsis.org/">araCyc</a> and <a
"http://www.kegg.com/">KEGG</a>. In addition, new search terms href="http://www.bmrb.wisc.edu/">BMRB</a>. In addition, BioCyc now has
have been added to <a href="http://www.biocyc.org/">BioCyc</a>a dynamic update mechanism for updating species list. Many new
plus links to <a href=functions are now part of biobar, including customization of search
"http://www.charite.de/bioinf/strap/">STRAP</a> and <a href=menus, adding fixed custom links on the main menu. In the 'Group' mode,
"http://ibivu.cs.vu.nl/programs/trustwww/">TRUST</a> analysismultiple databases can be searched simultaneously for a search term
tools from the main menu. An options menu allows customization ofwith results opened in individual tabs. An options menu allows
 customization of
 the databases (setting up defaults, choosing which group/s of  the databases (setting up defaults, choosing which group/s of
databases to see, adding NCBI Library LinkOuts etc).</p><br>databases to see, adding NCBI Library LinkOuts etc, choosing to see
<table style="text-align: left; width: 988px; height: 312px;"searches in New Tabs, Same Tab etc etc).</p>
border="3" cellpadding="2" cellspacing="2"><br>
<tbody><table style="text-align: left; width: 988px; height: 312px;" border="3"
<tr> cellpadding="2" cellspacing="2">
<td style="vertical-align: top;"><span style=  <tbody>
"font-weight: bold;">Data Collections</span><br>    <tr>
 </td>      <td style="vertical-align: top;"><span style="font-weight: bold;">Data
<td style=Collections</span><br>
"vertical-align: top; background-color: rgb(255, 204, 204);">1.      </td>
       <td
  style="vertical-align: top; background-color: rgb(255, 204, 204);">1.
 EBI Databases with SRS<br>  EBI Databases with SRS<br>
 2. NCBI Databases<br>  2. NCBI Databases<br>
 3. DNA Database of Japan(DDBj)<br>  3. DNA Database of Japan(DDBj)<br>
 </td>      </td>
<td style="vertical-align: top;"><span style=      <td style="vertical-align: top;"><span style="font-weight: bold;">Functional
"font-weight: bold;">Functional Databases</span><br>Databases</span><br>
 </td>      </td>
<td style=      <td
"vertical-align: top; background-color: rgb(255, 204, 204);"> style="vertical-align: top; background-color: rgb(255, 204, 204);">
<ol>      <ol>
<li>aMAZE</li>        <li>aMAZE</li>
        <li>araCyc<br>
<li>BioCyc</li>        </li>
        <li>BioCyc</li>
<li>KEGG</li>        <li>KEGG</li>
        <li>Gene Ontology (GO)</li>
<li>Gene Ontology (GO)</li>        <li>IntAct</li>
        <li>Reactome Database</li>
<li>IntAct</li>      </ol>
      </td>
<li>Reactome Database</li>    </tr>
</ol>    <tr>
</td>      <td style="vertical-align: top;"><span style="font-weight: bold;">Sequence
</tr>Databases</span><br>
      </td>
<tr>      <td
<td style="vertical-align: top;"><span style= style="vertical-align: top; background-color: rgb(255, 204, 204);">
"font-weight: bold;">Sequence Databases</span><br>      <ol>
 </td>        <li>EMBL Nucleotide Database</li>
<td style=        <li>Ensembl Genome Browser</li>
"vertical-align: top; background-color: rgb(255, 204, 204);">        <li>UniProt Sequence Database</li>
<ol>        <li>InterPro</li>
<li>EMBL Nucleotide Database</li>        <li>Integr8</li>
        <li>Expert Protein Analysis System (ExPASy)</li>
<li>Ensembl Genome Browser</li>        <li>Pfam</li>
        <li>Alternative Splicing Database (ASD)</li>
<li>UniProt Sequence Database</li>        <li>Glovar Genome Browser<br>
        </li>
<li>InterPro</li>      </ol>
      </td>
<li>Integr8</li>      <td style="vertical-align: top;"><span style="font-weight: bold;">Structural
Databases</span><br>
<li>Expert Protein Analysis System (ExPASy)</li>      </td>
      <td
<li>Pfam</li> style="vertical-align: top; background-color: rgb(255, 204, 204);">
      <ol>
<li>Alternative Splicing Database (ASD)</li>        <li>Macromolecular Structure Database (MSD)</li>
        <li>Research Collaboratory for Structural Bioinformatics
<li>Glovar Genome Browser<br> 
</li> 
</ol> 
</td> 
<td style="vertical-align: top;"><span style= 
"font-weight: bold;">Structural Databases</span><br> 
 </td> 
<td style= 
"vertical-align: top; background-color: rgb(255, 204, 204);"> 
<ol> 
<li>Macromolecular Structure Database (MSD)</li> 
 
<li>Research Collaboratory for Structural Bioinformatics 
 (RCSB)</li>  (RCSB)</li>
        <li>Protein Data Bank Japan (PDBj)</li>
<li>Protein Data Bank Japan (PDBj)</li>        <li>BMRB</li>
        <li>OCA<br>
<li>PDBsum<br>        </li>
</li>        <li>PDBsum<br>
        </li>
<li>EM-Search</li>        <li>EM-Search</li>
        <li>Nucleic Acid Database (NDB)</li>
<li>Nucleic Acid Database (NDB)</li>        <li>CATH</li>
        <li>SCOP</li>
<li>CATH</li>        <li>EDS<br>
        </li>
<li>SCOP</li>      </ol>
</ol>      </td>
</td>    </tr>
</tr>    <tr>
      <td style="vertical-align: top;"><span style="font-weight: bold;">Animal
<tr>Databases</span><br>
<td style="vertical-align: top;"><span style=      </td>
"font-weight: bold;">Animal Databases</span><br>      <td
 </td> style="vertical-align: top; background-color: rgb(255, 204, 204);">
<td style=      <ol>
"vertical-align: top; background-color: rgb(255, 204, 204);">        <li>Saccharomyces Genome Database (SGD)<br>
<ol>        </li>
<li>Saccharomyces Genome Database (SGD)<br>        <li>Flybase</li>
</li>        <li>Wormbase</li>
        <li>Rat Genome Database (RGD)<br>
<li>Flybase</li>        </li>
        <li>Mouse Genome Informatics (MGI)</li>
<li>Wormbase</li>        <li>Zebrafish Information (ZFIN)</li>
      </ol>
<li>Rat Genome Database (RGD)<br>      </td>
</li>      <td style="vertical-align: top;"><span style="font-weight: bold;">Plant
Databases</span><br>
<li>Mouse Genome Informatics (MGI)</li>      </td>
      <td
<li>Zebrafish Information (ZFIN)</li> style="vertical-align: top; background-color: rgb(255, 204, 204);">
</ol>      <ol>
</td>        <li>Gramene</li>
<td style="vertical-align: top;"><span style=        <li>MaizeGDB<br>
"font-weight: bold;">Plant Databases</span><br>        </li>
 </td>      </ol>
<td style=      </td>
"vertical-align: top; background-color: rgb(255, 204, 204);">    </tr>
<ol>  </tbody>
<li>Gramene</li> 
 
<li>MaizeGDB<br> 
</li> 
</ol> 
</td> 
</tr> 
</tbody> 
 </table>  </table>
   
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