Annotation of biobar/www/Databases.html, revision 1.13

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1.13    ! jawahar     8: <h3>Databases currently included in biobar</h3>
        !             9: 
        !            10: <p><a href="http://biobar.mozdev.org/installation.html">biobar
        !            11: 1.2.3</a> provides browsing and searching access to the following
1.11      jawahar    12: biological databases.<br>
1.4       jawahar    13: </p>
1.13    ! jawahar    14: 
        !            15: <p>The latest inclusions are <a href=
        !            16: "http://www.amaze.ulb.ac.be/">aMAZE</a> and <a href=
        !            17: "http://www.kegg.com/">KEGG</a>. In addition, new search terms
        !            18: have been added to <a href="http://www.biocyc.org/">BioCyc</a>
        !            19: plus links to <a href=
        !            20: "http://www.charite.de/bioinf/strap/">STRAP</a> and <a href=
        !            21: "http://ibivu.cs.vu.nl/programs/trustwww/">TRUST</a> analysis
        !            22: tools from the main menu. An options menu allows customization of
        !            23: the databases (setting up defaults, choosing which group/s of
        !            24: databases to see, adding NCBI Library LinkOuts etc).</p><br>
        !            25: <table style="text-align: left; width: 988px; height: 312px;"
        !            26: border="3" cellpadding="2" cellspacing="2">
        !            27: <tbody>
        !            28: <tr>
        !            29: <td style="vertical-align: top;"><span style=
        !            30: "font-weight: bold;">Data Collections</span><br>
        !            31:  </td>
        !            32: <td style=
        !            33: "vertical-align: top; background-color: rgb(255, 204, 204);">1.
1.5       jawahar    34: EBI Databases with SRS<br>
1.4       jawahar    35: 2. NCBI Databases<br>
                     36: 3. DNA Database of Japan(DDBj)<br>
1.13    ! jawahar    37:  </td>
        !            38: <td style="vertical-align: top;"><span style=
        !            39: "font-weight: bold;">Functional Databases</span><br>
        !            40:  </td>
        !            41: <td style=
        !            42: "vertical-align: top; background-color: rgb(255, 204, 204);">
        !            43: <ol>
        !            44: <li>aMAZE</li>
        !            45: 
        !            46: <li>BioCyc</li>
        !            47: 
        !            48: <li>KEGG</li>
        !            49: 
        !            50: <li>Gene Ontology (GO)</li>
        !            51: 
        !            52: <li>IntAct</li>
        !            53: 
        !            54: <li>Reactome Database</li>
        !            55: </ol>
        !            56: </td>
        !            57: </tr>
        !            58: 
        !            59: <tr>
        !            60: <td style="vertical-align: top;"><span style=
        !            61: "font-weight: bold;">Sequence Databases</span><br>
        !            62:  </td>
        !            63: <td style=
        !            64: "vertical-align: top; background-color: rgb(255, 204, 204);">
        !            65: <ol>
        !            66: <li>EMBL Nucleotide Database</li>
        !            67: 
        !            68: <li>Ensembl Genome Browser</li>
        !            69: 
        !            70: <li>UniProt Sequence Database</li>
        !            71: 
        !            72: <li>InterPro</li>
        !            73: 
        !            74: <li>Integr8</li>
        !            75: 
        !            76: <li>Expert Protein Analysis System (ExPASy)</li>
        !            77: 
        !            78: <li>Pfam</li>
        !            79: 
        !            80: <li>Alternative Splicing Database (ASD)</li>
        !            81: 
        !            82: <li>Glovar Genome Browser<br>
        !            83: </li>
        !            84: </ol>
        !            85: </td>
        !            86: <td style="vertical-align: top;"><span style=
        !            87: "font-weight: bold;">Structural Databases</span><br>
        !            88:  </td>
        !            89: <td style=
        !            90: "vertical-align: top; background-color: rgb(255, 204, 204);">
        !            91: <ol>
        !            92: <li>Macromolecular Structure Database (MSD)</li>
        !            93: 
        !            94: <li>Research Collaboratory for Structural Bioinformatics
        !            95: (RCSB)</li>
        !            96: 
        !            97: <li>Protein Data Bank Japan (PDBj)</li>
        !            98: 
        !            99: <li>PDBsum<br>
        !           100: </li>
        !           101: 
        !           102: <li>EM-Search</li>
        !           103: 
        !           104: <li>Nucleic Acid Database (NDB)</li>
        !           105: 
        !           106: <li>CATH</li>
        !           107: 
        !           108: <li>SCOP</li>
        !           109: </ol>
        !           110: </td>
        !           111: </tr>
        !           112: 
        !           113: <tr>
        !           114: <td style="vertical-align: top;"><span style=
        !           115: "font-weight: bold;">Animal Databases</span><br>
        !           116:  </td>
        !           117: <td style=
        !           118: "vertical-align: top; background-color: rgb(255, 204, 204);">
        !           119: <ol>
        !           120: <li>Saccharomyces Genome Database (SGD)<br>
        !           121: </li>
        !           122: 
        !           123: <li>Flybase</li>
        !           124: 
        !           125: <li>Wormbase</li>
        !           126: 
        !           127: <li>Rat Genome Database (RGD)<br>
        !           128: </li>
        !           129: 
        !           130: <li>Mouse Genome Informatics (MGI)</li>
        !           131: 
        !           132: <li>Zebrafish Information (ZFIN)</li>
        !           133: </ol>
        !           134: </td>
        !           135: <td style="vertical-align: top;"><span style=
        !           136: "font-weight: bold;">Plant Databases</span><br>
        !           137:  </td>
        !           138: <td style=
        !           139: "vertical-align: top; background-color: rgb(255, 204, 204);">
        !           140: <ol>
        !           141: <li>Gramene</li>
        !           142: 
        !           143: <li>MaizeGDB<br>
        !           144: </li>
        !           145: </ol>
        !           146: </td>
        !           147: </tr>
        !           148: </tbody>
1.4       jawahar   149: </table>
1.13    ! jawahar   150: 
1.4       jawahar   151: <p><br>
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