. Author manuscript; available in PMC: 2012 Jan 1.

Published in final edited form as: Nat Methods. 2011 May 15;8(7):587–591. doi: 10.1038/nmeth.1609

Table 1.

Search results for archive of 14.5 million spectra of Shewanella oneidensis MR-1. For each fraction of the full dataset, the table compares the identifications (number of proteins, peptides and spectra/cluster annotations) made by a regular database search and by searching the clusters in the archive. The searches were done against a database of S. oneidensis protein sequences with false discovery rate of 2%.

	Regular database search				Archive clusters search
Dataset fraction	Num. spectra searched	Num. protein ids	Num. peptide ids	Num. spectra annotated	Num. clusters searched	Num. protein ids	Num. peptide ids	Num. annotations
Dataset fraction	Num. spectra searched	Num. protein ids	Num. peptide ids	Num. spectra annotated	Num. clusters searched	Num. protein ids	Num. peptide ids	Clusters	Spectra
1/5	2.9M	2,257	28,083	0.5M	0.61M	2,304	29,948	0.18M	0.75M
2/5	5.8M	2,435	33,866	0.95M	1.06M	2,471	35,648	0.28M	1.52M
3/5	8.7M	2,518	37,093	1.42M	1.49M	2,566	39,355	0.37M	2.34M
4/5	11.6M	2,561	39,205	1.84M	1.89M	2,611	41,418	0.44M	3.09M
5/5	14.5M	2,608	40,680	2.28M	2.29M	2,660	43,415	0.51M	3.96M