| Preview: A Program for Surveying Shotgun Proteomics Tandem Mass-Spectrometry Data. | |
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MedLine Citation:
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PMID: 21619057 Owner: NLM Status: Publisher |
Abstract/OtherAbstract:
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Database-search programs for peptide identification by tandem mass spectrometry ask their users to set various parameters, including precursor and fragment mass tolerances, digestion specificity, and allowed types of modifications. Even proteomics experts with detailed knowledge of their samples may find it difficult to make these choices without significant investigation, and poor choices can lead to missed identifications and misleading results. Here we describe a program called Preview that analyzes a set of mass spectra for mass errors, digestion specificity, and known and unknown modifications, thereby facilitating parameter selection. Moreover, Preview optionally recalibrates mass-over-charge measurements, leading to further improvement in identification results. In a study of Bruton's tyrosine kinase, we find that the use of Preview improved the number of confidently identified mass spectra and phosphorylation sites by about 50%. |
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Authors:
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Yong J Kil; Christopher Becker; Wendy Sandoval; David Goldberg; Marshall Wayne Bern |
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Publication Detail:
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Type: JOURNAL ARTICLE Date: 2011-5-28 |
Journal Detail:
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Title: Analytical chemistry Volume: - ISSN: 1520-6882 ISO Abbreviation: - Publication Date: 2011 May |
Date Detail:
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Created Date: 2011-5-30 Completed Date: - Revised Date: - |
Medline Journal Info:
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Nlm Unique ID: 0370536 Medline TA: Anal Chem Country: - |
Other Details:
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Languages: ENG Pagination: - Citation Subset: - |
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From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine
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