The Global Proteome Machine was set up so that scientists involved in proteomics using tandem mass spectrometry could use that data to analyze proteomes. This project is supported by the GPMO to improve the quality of analysis, make the results portable and to provide a common platform for testing and validating proteomics results.

The GPM is currently configured to use the following proteomes:

1. A. thaliana (ATH1, TAIR v. 6.0, Nov 2005)
2. Cat (55, CAT, Jun 2006)
3. Chicken (55, WASHUC2, May 2006)
4. Cow (55, BTAU 4.0, Oct 2007)
5. D. melanogaster (55, BDGP 5.4, Nov 2007)
6. Dog (55, BROAD 2.0, Aug 2006)
7. Elegant worm (55, WS 200, Jan 2009)
8. Guinea pig (55, cavPor3, Mar 2008)
9. Horse (55, Equ Cab 2, Sep 2007)
10. Human (55, GRCh 37, Feb 2009)
11. Mosquito (50.3k, AgamP3, Feb 2006)
12. Mouse (55, NCBI m37, Dec 2007)
13. Rabbit (55, RABBIT, May 2005)
14. Rat (55, 3.4 RGSC, Aug 2006)
15. Rice (OSA1, Apr 2004)
16. S. pombe (v. 19, Jun 2005)
17. Yeast (55, SGD 1.01, Dec 2006)
18. X. tropicalis (55, JGI 4.1, Aug 2006)
19. Zebra fish (55, WTSI Zv8, Dec 2008)

Other classes of boutique proteomes:

• All Unigene resources (plant + Xenopus sp. + human + mouse + rat + cow) are updated every Monday evening, at 22:00 CST.
• Bacterial proteomes are updated from NCBI, when significant new species are added.
• Viral proteomes are updated from NCBI, as necessary. Viral proteomes were first added to the GPM on August 5, 2009.
• In addition to the proteomes listed, a small collection of common contaminant and "test" proteins is included. These proteins include bovine and porcine trypsin and bovine serum albumin. If you would like to see any other contaminants included in this collection, please click here.