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- 2016
- SFINX: straightforward filtering index for affinity purification mass spectrometry data analysis
- 2015
- Limited proteolysis combined with stable isotope labeling reveals conformational changes in protein (pseudo)kinases upon binding small molecules
- PepShell: visualization of conformational proteomics data
- A decoy-free approach to the identification of peptides
- The MetaProteomeAnalyzer: a powerful open-source software suite for metaproteomics data analysis and interpretation
- Summarization vs. peptide-based models in label-free quantitative proteomics: performance, pitfalls, and data analysis guidelines
- Plasma N-glycome signature of Down syndrome
- iMonDB: mass spectrometry quality control through instrument monitoring
- Managing expectations when publishing tools and methods for computational proteomics
- Phospho-iTRAQ: assessing isobaric labels for the large-scale study of phosphopeptide stoichiometry