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 language | English |
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Pages (from-to) | 2581-2589 |
Number of pages | 9 |
Journal | Journal of Proteome Research |
Volume | 17 |
Issue number | 8 |
DOIs | |
Publication status | Published - 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