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Quality assessments of peptide-spectrum matches in shotgun proteomics
2011 (English)In: Proteomics, ISSN 1615-9853, E-ISSN 1615-9861, Vol. 11, no 6, 1086-1093 p.Article in journal (Refereed) Published
Abstract [en]

The peptide identification process in shotgun proteomics is most frequently solved with search engines. Such search engines assign scores that reflect similarity between the measured fragmentation spectrum and the theoretical spectra of the peptides of a given database. However, the scores from most search engines do not have a direct statistical interpretation. To understand and make use of the significance of peptide identifications, one must thus be familiar with some statistical concepts. Here, we discuss different statistical scores used to show the confidence of an identification and a set of methods to estimate these scores. We also describe the variance of statistical scores and imperfections of scoring functions of peptide-spectrum matches.

Place, publisher, year, edition, pages
2011. Vol. 11, no 6, 1086-1093 p.
National Category
Bioinformatics (Computational Biology)
Identifiers
URN: urn:nbn:se:kth:diva-48840DOI: 10.1002/pmic.201000432ISI: 000288137700010PubMedID: 21365749OAI: oai:DiVA.org:kth-48840DiVA: diva2:458751
Funder
Science for Life Laboratory - a national resource center for high-throughput molecular bioscience
Note
QC 20111128Available from: 2011-11-23 Created: 2011-11-23 Last updated: 2017-12-08Bibliographically approved

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Käll, Lukas

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