Search Pathway Commons:
Current filter settings: All Organisms, All Data Sources. Set filters.
What's New:
What's New:
- August 25, 2015:
- This portal has not been updated since October 2011. Please use the new PC2 web services.
- May 28, 2013:
- This portal will not be updated in the future and we are working on a replacement Pathway Commons service for expected release in mid-2013.
- We encourage you to test the new service and switch to it once it is released.
- Please send us questions and feedback.
- Oct 27, 2011:
- BioGRID data set (September 25, 2011 Version 3.1.81).
- IntAct data set (September 29, 2011 Version 3.1.17288).
- Nature Pathway Interaction data set (October 12, 2011).
- Reactome data set (September 20, 2011 Version 38).
- June 24, 2011:
- BioGRID data set (May 1, 2011 Version 3.1.76).
- HumanCyc data set (June 8, 2011 Version 15.1).
- Nature Pathway Interaction data set (June 14, 2011).
- April 25, 2011:
- Reactome data set (March 15, 2011 Version 36).
- IntAct data set (February 3, 2011 Version 138).
- MetaCyc removed due to organism generic pathways - will be
brought back when these pathways are supported in Pathway Commons.
- Bug fixes to import pipeline and batch download exporter.
- February 4, 2010:
- Added MetaCyc data set (December 7, 2010 Version 14.6).
- BioGRID data set (December 15, 2010 Version 3.1.72).
- HumanCyc data set (October 7, 2010 Version 14.6).
- IntAct data set (December 15, 2010).
- Mint data set (December 21, 2010).
- Nature PID (September 16, 2010).
- Reactome data set (December 17, 2010 Version 35).
- September 7, 2010:
- BioGRID data set (July 31, 2010 Velsion 30.0.67).
- HPRD data set (April 13, 2010 Version 9).
- HumanCyc data set (June 16, 2010 Version 14.1).
- IntAct data set (August 8, 2010).
- MINT data set (July 28, 2010).
- NCI/Nature Pathway Interaction Database (August 10, 2010).
- Reactome data set (June 18, 2010 Version 33).
- October 15, 2009:
- Improved search functionality.
- July 2, 2009:
- Batch Download of all Pathway Commons data in multiple file formats is now available.
- Systems Biology Center New York - IMID data set (December 17, 2008 Version 27).
- Latest Reactome data set (June 24, 2009 Version 29).
- Latest HumanCyc data set (June 22, 2009 Version 13.1).
- All yeast proteins are now annotated with UniProt functional annotation.
|
|
Using Pathway Commons:
Biologists:
Browse and search pathways across multiple valuable public pathway databases.
Computational biologists:
Download an integrated set of pathways in BioPAX format for global analysis.
Software developers:
Build software on top of Pathway Commons using our web service API.
Download and install the cPath software to
create a local mirror.
Current Data Sources:
Pathway Commons currently contains the following data sources (batch download):
Pathway Commons Quick Stats:
Number of Pathways: |
1,668 |
Number of Interactions: |
442,182 |
Number of Physical Entities: |
86,282 |
Number of Organisms: |
414 |
Integration of additional data sources is planned in the near future. For a comprehensive directory
of interaction and pathway databases, please refer to Pathguide.
Citing Pathway Commons:
To cite the Pathway Commons Project:
Cerami et al. Pathway Commons, a web resource for biological pathway data. Nucl. Acids Res. (2010)
doi: 10.1093/nar/gkq1039
To cite the cPath Software:
Cerami et al. cPath: open source software for collecting, storing, and querying biological pathways. BMC Bioinformatics. (2006)
doi:10.1186/1471-2105-7-497
|