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  • Title: Global Identification of Protein Post-translational Modifications in a Single-Pass Database Search.
    Author: Shortreed MR, Wenger CD, Frey BL, Sheynkman GM, Scalf M, Keller MP, Attie AD, Smith LM.
    Journal: J Proteome Res; 2015 Nov 06; 14(11):4714-20. PubMed ID: 26418581.
    Abstract:
    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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