Global Identification of Protein Post-translational Modifications in a Single-Pass Database Search | Zendy

Michael R. Shortreed | Zendy; Craig D. Wenger | Zendy; Brian L. Frey | Zendy; Gloria Sheynkman | Zendy; Mark Scalf | Zendy; Mark P. Keller | Zendy; Alan Attie | Zendy; Lloyd M. Smith | Zendy

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Global Identification of Protein Post-translational Modifications in a Single-Pass Database Search

Author(s) -

Michael R. Shortreed,

Craig D. Wenger,

Brian L. Frey,

Gloria Sheynkman,

Mark Scalf,

Mark P. Keller,

Alan Attie,

Lloyd M. Smith

Publication year - 2015

Publication title -

journal of proteome research

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 1.644

H-Index - 161

eISSN - 1535-3907

pISSN - 1535-3893

DOI - 10.1021/acs.jproteome.5b00599

Subject(s) - database search engine , identification (biology) , computer science , posttranslational modification , database , proteomics , computational biology , information retrieval , search engine , biology , genetics , biochemistry , botany , enzyme , gene

Bottom-up proteomics database search algorithms used for peptide identification cannot comprehensively identify post-translational modifications (PTMs) in a single-pass because of high false discovery rates (FDRs). A new approach to database searching enables global PTM (G-PTM) identification by exclusively looking for curated PTMs, thereby avoiding the FDR penalty experienced during conventional variable modification searches. We identified over 2200 unique, high-confidence modified peptides comprising 26 different PTM types in a single-pass database search.

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