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<font class="medium">Molecular Biology and Genomic Pathway Links</font>
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<b>Databases</b>

<Ul>
<li><a href="http://www.netpath.org/index.html">Netpath: Signal Transduction Pathways</a></li>
<li><a href="http://blast.ncbi.nlm.nih.gov/Blast.cgi">BLAST: Basic Local Alignment Search Tool</a></li>
<li><a href="http://www.pdb.org/pdb/home/home.do">PDB: Protein Data Bank</a></li>
<li><a href="http://www.ncbi.nlm.nih.gov/sites/entrez?db=omim">OMIM: Online Medelian Inheritance in Man</a></li>
<li><a href="http://www.genome.jp/kegg/">KEGG: Kyoto Encyclopedia of Genes and Genomes</a></li>

<li><a href="http://www.signaling-gateway.org/molecule/">UCSD-Nature Signaling Gateway Molecule Pages</a></li> 
<li><a href="http://www.geneontology.org/GO.downloads.ontology.shtml">Gene Ontologies</a></li> 
<li><a href="http://www.pathwaycommons.org/pc/cytoscape.do">Pathway Commons</a></li> 
<li><a href="http://www.csc.fi/english/research/sciences/bioscience/Courses_and_events/cytoscape/index_html">Network Analysis with Cytoscape</a></li>

<li><a href="http://www.functionalglycomics.org/">Functional Glycomics Gateway</a></li>
<li><a href="http://www.researchinformatics.org/index.php?option=com_mambowiki&page=Main_Page&page_heading=CRI%20Wiki&show_pageheading=1&allowanonymoususers=0">Clinical Research Informatics Wiki (CRI Wiki)</a></li>  
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<b>Programming and Editing Environments</b>
<ul>
<li><a href="http://www.bioperl.org/wiki/Main_Page">Bioperl</a></li>
<li><a href="http://www.cpan.org/">CPAN: Comprehensive Perl Archive Network</a></li>
<li><a href="http://www.cytoscape.org/">Cytoscape, a bioinformatics software platform for visualizing molecular interaction networks and integrating these interactions with gene expression profiles and other state data</a></li>
<li><a href="http://www.graphviz.org/"> Graphviz - Graph Visualization Software</a></li>
<li><a href="http://www.perl.org/">Perl Programming Language Portal</a></li>
<li><a href="http://antimony.sourceforge.net/">Antimony</a></li>
<li><a href="http://www.tinkercell.com/Home">Tinkercell</a></li>
<li><a href="http://www.sbolstandard.org/">SBOL (System Biology Open Language)</a></li>
<li><a href="http://sbml.org/Main_Page">SBML (System Biology Markup Language)</a></li>
<li><a href="http://www.celldesigner.org/">Cell Designer</a></li>
<li><a href="http://ccl.northwestern.edu/netlogo/">NetLogo (agent based modeling)</a></li>
<li><a href="http://www.uniprot.org/">UniProt (Universal Protein Resource) </a></li>
<li><a href="http://www.ncbi.nlm.nih.gov/books/NBK25500/">Entrez E-Utilities</a></li>
</ul>
<b>APIs, Apps, Visualization and and Mining Tools</b>
<ul>
<li><a href="http://fold.it/portal/">Fold It</a></li>
<li><a href="http://www-958.ibm.com/software/data/cognos/manyeyes/">Many Eyes</a></li>
<li><a href="http://www.google.com/google-d-s/spreadsheets/#utm_campaign=en&utm_source=en-ha-na-us-bk&utm_medium=ha&utm_term=google%20spreadsheets">Google Spreadsheets</a></li>
<li><a href="http://thejit.org/">JavaScript InfoVis Toolkit</a></li>
<li><a href="www.protovis.org/">Protovis</a></li>
<li><a href="www.processing.org/">Processing</a></li> 
<li><a href="www.processing.org/">Processing</a></li>   
<li><a href="http://www.jsphylosvg.com/">jsPhyloSVG</li>
<li><a href="http://www.phyloxml.org/">phyloXML</li>
</ul>
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