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Updated: Apr 1, 2026

A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes
Published on: May 22, 2018
Global Identification of Protein Post-translational Modifications in a Single-Pass Database Search
Michael R Shortreed1, Craig D Wenger1, Brian L Frey1
1Department of Chemistry and ‡Department of Biochemistry, University of Wisconsin , Madison, Wisconsin 53706, United States.
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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