Ralf Gabriels

Latest

• Generating high-quality libraries for DIA datasets
• Immunopeptidomics-based design of mRNA vaccine formulations against Listeria monocytogenes
• MS²Rescore: Data-driven rescoring dramatically boosts immunopeptide identification rates
• Enabling novel and challenging proteomics workflows with MS²Rescore
• Machine learning to the rescue: Enabling novel proteomics workflows with data-driven bioinformatics methods
• A comprehensive evaluation of consensus spectrum generation methods in proteomics
• Sensitive and Specific Spectral Library Searching with CompOmics Spectral Library Searching Tool and Percolator
• A comprehensive LFQ benchmark dataset on modern day acquisition strategies in proteomics
• Proteomics Standards Initiative’s ProForma 2.0: Unifying the Encoding of Proteoforms and Peptidoforms
• MS²DIP: Highly accurate MS2 spectrum prediction for modified peptides & MS²Rescore: Data-driven rescoring dramatically boosts immunopeptide identification rates
• DeepLC can predict retention times for peptides that carry as-yet unseen modifications
• timsTOF analysis combined with fragment intensity predictions results in improved identification of classical bioactive peptides and sORF-encoded peptides
• Algorithms for automatic spectrum identification
• Universal Spectrum Identifier for mass spectra
• Personalized Proteome: Comparing Proteogenomics and Open Variant Search Approaches for Single Amino Acid Variant Detection
• Spectral prediction features as a solution for the search space size problem in proteogenomics
• Cov-MS: A Community-Based Template Assay for Mass-Spectrometry-Based Protein Detection in SARS-CoV-2 Patients
• Proceedings of the EuBIC-MS 2020 Developers’ Meeting
• The Age of Data-Driven Proteomics: How Machine Learning Enables Novel Workflows
• Removing the Hidden Data Dependency of DIA with Predicted Spectral Libraries
• The HUPO-PSI standardized spectral library format
• MS²PIP: Predicting peptide spectrum peak intensities to improve proteomics identification
• MS²PIP : fast and accurate MS² peak intensity prediction for multiple fragmentation methods, instruments and labeling techniques
• Updated MS²PIP web server delivers fast and accurate MS² peak intensity prediction for multiple fragmentation methods, instruments and labeling techniques
• Fast and accurate MS² peak intensity prediction for multiple fragmentation methods, instruments and labeling techniques
• Fast and accurate MS² peak intensity predictions for multiple fragmentation methods, instruments and labeling techniques
• Fast and accurate MS² peak intensity predictions for multiple fragmentation methods, instruments and labeling techniques
• MS² peak intensity prediction for specific PTMs, fragmentation techniques and instruments