Develop BioPAX Ontology and Examples

(imported from sf.net/p/biopax, http://hg.code.sf.net/p/biopax/code, on 16 April 2015)

Biological Pathways 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 OWL DL and is represented in the RDF/XML format. BioPAX Paper was published in Nature Biotechnology in 2010.

"Hello World"

<?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>

Links:

• BioPAX ontology and documentation releases
• http://biopax.github.io
• BioPAX model examples
• BioPAX archive and downloads

Sincerely yours, BioPAX team.

And, e.g., http://www.biopax.org/release/biopax-level3.owl is a stable official URI to use in the xml namespace declaration of a BioPAX Level3 data file, such as this example.)