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Quality assessments of peptide-spectrum matches in shotgun proteomics
Stockholm University, Faculty of Science, Department of Biochemistry and Biophysics.
Stockholm University, Faculty of Science, Department of Biochemistry and Biophysics.
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.
Keyword [en]
Bioinformatics, High-throughput proteomics, Statistical models, Tandem mass spectra
National Category
Biochemistry and Molecular Biology
Identifiers
URN: urn:nbn:se:su:diva-67902DOI: 10.1002/pmic.201000432ISI: 000288137700010OAI: oai:DiVA.org:su-67902DiVA: diva2:472059
Note

authorCount :2

Available from: 2012-01-03 Created: 2012-01-02 Last updated: 2017-12-08Bibliographically approved

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