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<!DOCTYPE html>
<html>
<head>
<meta charset='utf-8'>
<meta http-equiv="X-UA-Compatible" content="chrome=1">
<meta name="viewport" content="width=device-width, initial-scale=1, maximum-scale=1">
<link href='https://fonts.googleapis.com/css?family=Architects+Daughter' rel='stylesheet' type='text/css'>
<link rel="stylesheet" type="text/css" href="stylesheets/stylesheet.css" media="screen">
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<title>BioPAX</title>
</head>
<body>
<header>
<div class="inner">
<h1>BioPAX</h1>
<h2>Biological Pathway Exchange</h2>
<a href="https://github.com/BioPAX" class="button"><small>Follow me on</small> GitHub</a>
</div>
</header>
<div id="content-wrapper">
<div class="inner clearfix">
<section id="main-content">
<p>Biological Pathway Exchange (BioPAX) is a standard language that aims to enable integration, exchange, visualization and analysis
of biological pathway data. Specifically, BioPAX supports data exchange between pathway data groups and thus reduces the complexity
of interchange between data formats by providing an accepted standard format for pathway data. It is an open and collaborative effort
by the community of researchers, software developers, and institutions. BioPAX is defined in
<a href="https://www.w3.org/TR/owl-features/">OWL DL</a> and is represented in the RDF/XML format. For more details, see
<a href="https://www.nature.com/nbt/journal/v28/n9/full/nbt.1666.html">Demir E <em>et al.</em> 2010. The BioPAX community standard for pathway data sharing, Nature Biotechnology. 28(9)</a>.
</p>
<h2><a id="links" class="anchor" href="#links" aria-hidden="true"><span aria-hidden="true" class="octicon octicon-link">
</span></a>Links:</h2>
<ul>
<li>BioPAX ontology and documentation <a href="https://www.biopax.org/release/">releases</a></li>
<li>Specification <a href="https://github.com/BioPAX/specification/">development</a></li>
<li><a href="https://www.biopax.org/downloads/biopax/">Archive and downloads</a></li>
<li><a href="https://groups.google.com/forum/#!forum/biopax-discuss">Google group</a></li>
<li><a onclick="return false;" href="https://www.biopax.org/wiki/">Wiki</a>(archive; mediawiki got spammed, and we put it down in 2014)</li>
<li><a href="https://www.biopax.org/validator/">BioPAX validator</a></li>
<li><a href="https://co.mbine.org/standards/">BioPAX @ COMBINE</a></li>
<li>View BioPAX via
<ul>
<li><a href="https://webprotege.stanford.edu/#projects/0047e89b-3018-4a7e-a725-ff78e3f497bb">WebProtege</a>(requires an account)</li>
<li><a href="https://www.biopax.org/owldoc/Level3/">OWLdoc</a></li>
<li><a href="https://vowl.visualdataweb.org/webvowl/#iri=http://www.biopax.org/release/biopax-level3.owl">WebVOWL</a></li>
</ul>
</li>
</ul>
<h2>
<a id="hello-world-example" class="anchor" href="#hello-world-example" aria-hidden="true">
<span aria-hidden="true" class="octicon octicon-link"></span></a>"Hello World" example:
</h2>
<pre><code><?xml version="1.0" encoding="UTF-8"?>
<rdf:RDF
xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
xmlns:owl="http://www.w3.org/2002/07/owl#"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
xmlns:bp="http://www.biopax.org/release/biopax-level3.owl#" xml:base="">
<owl:Ontology rdf:about="">
<owl:imports rdf:resource="http://www.biopax.org/release/biopax-level3.owl#" />
</owl:Ontology>
<bp:Protein rdf:about="http://my.example.com/biopax#HelloWorld">
<bp:displayName rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Hello World!</bp:displayName>
</bp:Protein>
</rdf:RDF>
</code></pre>
<p>More examples <a href="https://github.com/BioPAX/specification/blob/master/Level3/examples/">examples</a><p></p>
<h2>Scientific Advisory Board</h2>
<p>
<li><a href="https://baderlab.org/GaryBader">Gary Bader</a>, University of Toronto</li>
<li><a href="https://med.nyu.edu/faculty/peter-g-d-eustachio">Peter D'Eustachio</a>, New York University</li>
<li><a href="https://www.ebi.ac.uk/people/person/henning-hermjakob/">Henning Hermjakob</a>, European Bioinformatics Institute</li>
<li><a href="https://www.ebi.ac.uk/compneur-srv/">Nicolas LeNovere</a>, European Bioinformatics Institute</li>
<li><a href="https://www.ai.sri.com/pkarp/">Peter Karp</a>, SRI International</li>
<li><a href="https://www.sanderlab.org/">Chris Sander</a> Harvard University</li>
</p>
</section>
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<p>This page was generated by <a href="https://pages.github.com">GitHub Pages</a>
using the Architect theme by <a href="https://twitter.com/jasonlong">Jason Long</a>.</p>
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