title: The BioPAX Validator.
abstract: CONCLUSIONS
  BioPAX is a community-developed standard language for biological pathway data. A key functionality required for efficient BioPAX data exchange is validation-detecting errors and inconsistencies in BioPAX documents. The BioPAX Validator is a command-line tool, Java library and online web service for BioPAX that performs >100 classes of consistency checks.
  
  
  METHODS
  The validator recognizes common syntactic errors and semantic inconsistencies and reports them in a customizable human readable format. It can also automatically fix some errors and normalize BioPAX data. Since its release, the validator has become a critical tool for the pathway informatics community, detecting thousands of errors and helping substantially increase the conformity and uniformity of BioPAX-formatted data. The BioPAX Validator is open source and released under LGPL v3 license. All sources, binaries and documentation can be found at sf.net/p/biopax, and the latest stable version of the web application is available at biopax.org/validator.
authors.affiliation: The Donnelly Centre, University of Toronto, Toronto, Ontario M5S 3E1, Canada and Computational Biology Center, Memorial Sloan-Kettering Cancer Center, 1275 York Avenue, New York, NY, USA.
authors.forename: Igor
authors.initials: I
authors.lastname: Rodchenkov
authors.forename: Emek
authors.initials: E
authors.lastname: Demir
authors.forename: Chris
authors.initials: C
authors.lastname: Sander
authors.forename: Gary D
authors.initials: GD
authors.lastname: Bader
mesh_terms: D004282:Documentation; D020407:Internet; D012984:Software
references.citation: Nat Biotechnol. 2010 Sep;28(9):935-42
references.pmid: 20829833
references.citation: Nucleic Acids Res. 2006 Jan 1;34(Database issue):D504-6
references.pmid: 16381921
references.citation: Bioinformatics. 2008 Mar 15;24(6):880-1
references.pmid: 18252737
references.citation: Proteomics. 2009 Nov;9(22):5112-9
references.pmid: 19834897
references.citation: PLoS Comput Biol. 2013;9(9):e1003194
references.pmid: 24068901
references.citation: Bioinformatics. 2010 Sep 15;26(18):2340-1
references.pmid: 20628075