A5098982041- Mass Spectrometry Techniques and Applications
- vaccines and immunoinformatics approaches
- Advanced Proteomics Techniques and Applications
- Monoclonal and Polyclonal Antibodies Research
- Fault Detection and Control Systems
- Machine Learning and Data Classification
- Glycosylation and Glycoproteins Research
- Anomaly Detection Techniques and Applications
- Bacteriophages and microbial interactions
- Biosensors and Analytical Detection
- Machine Learning in Bioinformatics
VIB-UGent Center for Medical Biotechnology
2024-2025
Ghent University
2025
Ghent University Hospital
2025
The high throughput analysis of proteins with mass spectrometry (MS) is highly valuable for understanding human biology, discovering disease biomarkers, identifying therapeutic targets, and exploring pathogen interactions. To achieve these goals, specialized proteomics subfields, including plasma proteomics, immunopeptidomics, metaproteomics, must tackle specific analytical challenges, such as an increased identification ambiguity compared to routine experiments. Technical advancements in MS...
Peptide collisional cross-section (CCS) prediction is complicated by the tendency of peptide ions to exhibit multiple conformations in gas phase. This adds further complexity downstream analysis proteomics data, for example identification or quantification through feature finding. Here, we present an improved version IM2Deep that trained on a carefully curated dataset predict CCS values multiconformational peptides. The training data derived from large and comprehensive set publicly...
Mass spectrometry-based discovery of bacterial immunopeptides presented by infected cells allows untargeted antigens that can serve as vaccine candidates. However, reliable identification epitopes is challenged their extremely low abundance. Here, we describe an optimized bioinformatic framework to enhance the confident immunopeptides. Immunopeptidomics data cell cultures with Listeria monocytogenes were searched four different search engines, PEAKS, Comet, Sage and MSFragger, followed...
Abstract The high throughput analysis of proteins with mass spectrometry (MS) is highly valuable for understanding human biology, discovering disease biomarkers, identifying therapeutic targets, and exploring pathogen interactions. To achieve these goals, specialized proteomics subfields – such as plasma proteomics, immunopeptidomics, metaproteomics must tackle specific analytical challenges, an increased identification ambiguity compared to routine experiments. Technical advancements in MS...
Mass spectrometry-based discovery of bacterial immunopeptides presented by infected cells allows untargeted antigens that can serve as vaccine candidates. Reliable identification epitopes such immunopeptidomics approaches is however challenged their extreme low abundance. Here, we describe an optimized bioinformatical framework to enhance the confident immunopeptides. Immunopeptidomics data cell cultures with foodborne model pathogen Listeria monocytogenes were searched four different search...