The BioPAX community standard for pathway data sharing
Author(s)
Date
2010-09Source Title
Nature Biotechnology
Print ISSN
1087-0156
Publisher
Nature Publishing Group
Volume
28
Issue
9
Pages
935 - 942
Language
English
Type
ArticleItem Usage Stats
298
views
views
689
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downloads
Abstract
Biological Pathway Exchange (BioPAX) is a standard language to represent biological pathways at the molecular and cellular level and to facilitate the exchange of pathway data. The rapid growth of the volume of pathway data has spurred the development of databases and computational tools to aid interpretation; however, use of these data is hampered by the current fragmentation of pathway information across many databases with incompatible formats. BioPAX, which was created through a community process, solves this problem by making pathway data substantially easier to collect, index, interpret and share. BioPAX can represent metabolic and signaling pathways, molecular and genetic interactions and gene regulation networks. Using BioPAX, millions of interactions, organized into thousands of pathways, from many organisms are available from a growing number of databases. This large amount of pathway data in a computable form will support visualization, analysis and biological discovery. © 2010 Nature America, Inc. All rights reserved.
Keywords
Biological discoveriesBiological pathways
Cellular levels
Community standards
Computational tools
Data sharing
Gene regulation network
Genetic interaction
Rapid growth
Signaling pathways
Database systems
Visualization
Data visualization
Messenger RNA
Protein kinase B
Biological pathway exchange
Copy number variation
Database
Enzyme substrate
Fragmentation reaction
Metabolism
Molecular biology
Molecular dynamics
Molecular evolution
Molecular interaction
Priority journal
Promoter region
Protein DNA interaction
Protein expression
Protein modification
Protein protein interaction
Protein structure
Review
Semantics
Single nucleotide polymorphism
Structure analysis
Computational biology
Databases as topic
Information dissemination
Metabolic networks and pathways
Programming languages
Signal transduction
Software
Permalink
http://hdl.handle.net/11693/38163Published Version (Please cite this version)
http://dx.doi.org/10.1038/nbt.1666Collections
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