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== Coordination ==
 
== Coordination ==
  
* [http://groups.google.com/group/biopax-discuss?lnk=li The BioPAX Forum] (BioPAX Discussion Google Group).
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* [http://groups.google.com/group/biopax-discuss?lnk=li The BioPAX Forum]
 
* [[Level3Announcement | BioPAX Level3 Announcenment]]
 
* [[Level3Announcement | BioPAX Level3 Announcenment]]
 
* [[Specification | BioPAX Specification and Documentation]]  
 
* [[Specification | BioPAX Specification and Documentation]]  
* [[L4Workgroups | BioPAX Workgroups]]
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* [[BioPAX Governance]]
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* [[L4Workgroups | BioPAX Workgroups]] and [[BioPAX People Pages]] (Add yourself!)
 
* [[L4ProposalsList | BioPAX Proposals]]
 
* [[L4ProposalsList | BioPAX Proposals]]
* Next Workshop: [http://co.mbine.org/events/HARMONY_2013 Harmony 2013]
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* Next Workshops: [http://co.mbine.org/events/COMBINE_2014 COMBINE 2014], [http://co.mbine.org/events/HARMONY_2014 HARMONY 2014]
* Last Workshop:  [http://co.mbine.org/events/COMBINE_2012 COMBINE 2012 Toronto, ON]  
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* Last Workshops:  [http://co.mbine.org/events/COMBINE_2013 COMBINE 2013], [http://co.mbine.org/events/HARMONY_2013 HARMONY 2013], [http://biocuration2014.events.oicr.on.ca/biocuration Biocuration 2014 (Toronto, ON)]
 
* [[FAQ]]
 
* [[FAQ]]
* Archive
 
** [[Presentations_and_Publications | Previous Presentations and Publications]]
 
** [[Past meetings]]
 
** Level 3 [[BioPAX Workgroup Coordination]]
 
** [http://www.biopax.org/mailman/listinfo/biopax-discuss biopax-discuss]
 
** [http://groups.google.com/group/BioPAX-Boston biopax-boston]
 
** [http://archive.biopaxwiki.org Original Wiki Archive]
 
* [[Special:Categories | Wiki Pages by Category]]
 
  
== Using BioPAX ==
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==For biologists==
*<strong>For biologists and computational biologists interested in downloading and analyzing pathway data</strong>
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<strong>and computational biologists interested in downloading and analyzing pathway data:</strong>
** [http://www.biopax.org/release/biopax-level3.owl Level 3 Ontology] ([http://www.biopax.org/owldoc/Level3/ browse]) covers metabolic pathways, molecular interactions, signaling pathways (including molecular states and generics), gene regulation and genetic interactions.
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* [http://www.biopax.org/release/biopax-level3.owl Level 3 Ontology] ([http://www.biopax.org/owldoc/Level3/ browse]) covers metabolic pathways, molecular interactions, signaling pathways (including molecular states and generics), gene regulation and genetic interactions.
**[http://www.biopax.org/release/biopax-level2.owl Level 2 Ontology] ([http://www.biopax.org/owldoc/Level2 browse]) Support metabolic pathways, molecular interactions, protein post-translational modifications and the [http://psidev.sourceforge.net/ PSI-MI]
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*[http://www.biopax.org/release/biopax-level2.owl Level 2 Ontology] ([http://www.biopax.org/owldoc/Level2 browse]) supports metabolic pathways, molecular interactions, protein post-translational modifications and the [http://psidev.sourceforge.net/ PSI-MI]
**[http://www.biopax.org/release/biopax-level1.owl Level 1 Ontology] ([http://www.biopax.org/owldoc/Level1 browse]) Supports metabolic pathways
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*[http://www.biopax.org/release/biopax-level1.owl Level 1 Ontology] ([http://www.biopax.org/owldoc/Level1 browse]) supports metabolic pathways
**[[Data|Pathways in BioPAX format]]
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*[[Data|Pathways in BioPAX format]]
**[[Biological software supporting BioPAX]]
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*[[Biological software supporting BioPAX]]
*<strong>For developers interested in building software using BioPAX</strong>
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==For developers==
**[[Paxtools]]
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<strong>interested in building software using BioPAX:</strong>
**[http://www.medicalcomputing.net/owl1.html Introduction to OWL Web Ontology Language for Medical and Biosciences Applications]
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*[http://sourceforge.net/projects/biopax The BioPAX Project at SourceForge]
**[http://www.biopax.org/Docs/BioPAX-Jena_Tutorial.pdf Tutorial on accessing BioPAX content using Jena]
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*[[Paxtools]]
**[[Software Development Tools]]
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*[[BioPAXValidator]]
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*[http://www.medicalcomputing.net/owl1.html Introduction to OWL Web Ontology Language for Medical and Biosciences Applications]
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*[http://www.biopax.org/Docs/BioPAX-Jena_Tutorial.pdf Tutorial on accessing BioPAX content using Jena]
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*[[Software Development Tools]]
  
==Note==
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==Archive==
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* [[Presentations_and_Publications | Previous Presentations and Publications]]
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* [[Past meetings]]
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* [http://www.biopax.org/mailman/listinfo/biopax-discuss biopax-discuss]
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* [http://groups.google.com/group/BioPAX-Boston biopax-boston]
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* [http://archive.biopaxwiki.org Original Wiki Archive]
  
Old BioPAX (MoinMoin) wiki was auto-converted to this MediaWiki. We encourage everyone to simply pick a [[Special:Random|Random Page]] to review and edit.
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== [[Special:Categories | Wiki Pages by Category]] ==
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==Note==
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We encourage everyone to simply pick a [[Special:Random|Random Page]] to review and edit.
  
 
__NOTOC__
 
__NOTOC__

Latest revision as of 07:30, 12 July 2014

BioPAX : 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.

Coordination

For biologists

and computational biologists interested in downloading and analyzing pathway data:

For developers

interested in building software using BioPAX:

Archive

Wiki Pages by Category

Note

We encourage everyone to simply pick a Random Page to review and edit.