CharmeRT: Boosting Peptide Identifications by Chimeric Spectra Identification and Retention Time Prediction

Viktoria Dorfer, Sergey Maltsev, Stephan Winkler, Karl Mechtler

Research output: Contribution to journalArticlepeer-review

20 Citations (Scopus)

Abstract

Coeluting peptides are still a major challenge for the identification and validation of MS/MS spectra, but carry great potential. To tackle these problems, we have developed the here presented CharmeRT workflow, combining a chimeric spectra identification strategy implemented as part of the MS Amanda algorithm with the validation system Elutator, which incorporates a highly accurate retention time prediction algorithm. For high-resolution data sets this workflow identifies 38−64% chimeric spectra, which results in up to 63% more unique peptides compared to a conventional single search strategy.
Original languageEnglish
Pages (from-to)2581-2589
Number of pages9
JournalJournal of Proteome Research
Volume17
Issue number8
DOIs
Publication statusPublished - 3 Aug 2018

Keywords

  • MS/MS
  • chimeric spectra
  • database search
  • mixed spectra
  • retention time prediction
  • tandem mass spectrometry
  • validation
  • Humans
  • Workflow
  • Algorithms
  • Peptides/analysis
  • Time Factors
  • Chromatography, High Pressure Liquid/methods
  • Search Engine
  • Tandem Mass Spectrometry/instrumentation
  • HeLa Cells/chemistry

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