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Mol Cell Proteomics DOI:10.1074/mcp.R111.009522

A face in the crowd: recognizing peptides through database search.

Publication TypeJournal Article
Year of Publication2011
AuthorsEng, JK, Searle, BC, Clauser, KR, Tabb, DL
JournalMol Cell Proteomics
Date Published2011 Nov
KeywordsAlgorithms, Amino Acid Sequence, Animals, Databases, Protein, Humans, Molecular Weight, Peptide Fragments, Protein Processing, Post-Translational, Proteome, Search Engine, Tandem Mass Spectrometry

Peptide identification via tandem mass spectrometry sequence database searching is a key method in the array of tools available to the proteomics researcher. The ability to rapidly and sensitively acquire tandem mass spectrometry data and perform peptide and protein identifications has become a commonly used proteomics analysis technique because of advances in both instrumentation and software. Although many different tandem mass spectrometry database search tools are currently available from both academic and commercial sources, these algorithms share similar core elements while maintaining distinctive features. This review revisits the mechanism of sequence database searching and discusses how various parameter settings impact the underlying search.


Alternate JournalMol. Cell Proteomics
PubMed ID21876205
PubMed Central IDPMC3226415
Grant ListU24 CA126476 / CA / NCI NIH HHS / United States
U24 CA126477 / CA / NCI NIH HHS / United States
U24 CA126479 / CA / NCI NIH HHS / United States
U24 CA0126477 / CA / NCI NIH HHS / United States