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Assigning significance to peptides identified by tandem mass spectrometry using decoy databases (2008)
| Venue: | J. Proteome Res |
| Citations: | 65 - 13 self |
BibTeX
@ARTICLE{Käll08assigningsignificance,
author = {Lukas Käll and John D. Storey and Michael J. Maccoss and William Stafford Noble},
title = {Assigning significance to peptides identified by tandem mass spectrometry using decoy databases},
journal = {J. Proteome Res},
year = {2008},
pages = {29--34}
}
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Abstract
Automated methods for assigning peptides to observed tandem mass spectra typically return a list of peptide-spectrum matches, ranked according to an arbitrary score. In this article, we describe methods for converting these arbitrary scores into more useful statistical significance measures. These methods employ a decoy sequence database as a model of the null hypothesis, and use false discovery rate (FDR) analysis to correct for multiple testing. We first describe a simple FDR inference method and then describe how estimating and taking into account the percentage of incorrectly identified spectra in the entire data set can lead to increased statistical power.
