Abbas, Qussai;Wilhelm, Mathias;Kuster, Bernhard;Poppenberger, Brigitte;Frishman, Dmitrij
Exploring crop genomes: assembly features, gene prediction accuracy, and implications for proteomics studies
BMC Genomics
2024
25
1

The, Matthew;Picciani, Mario;Jensen, Cecilia;Gabriel, Wassim;Kuster, Bernhard;Wilhelm, Mathias
AI-Assisted Processing Pipeline to Boost Protein Isoform Detection
Methods in Molecular Biology
Springer US
2024

Beltrao, Pedro;Van Den Bossche, Tim;Gabriels, Ralf;Holstein, Tanja;Kockmann, Tobias;Nameni, Alireza;Panse, Christian;Schlapbach, Ralph;Lautenbacher, Ludwig;Mattanovich, Matthias;Nesvizhskii, Alexey;Van Puyvelde, Bart;Scheid, Jonas;Schwämmle, Veit;Strauss, Maximilian;Susmelj, Anna Klimovskaia;The, Matthew;Webel, Henry;Wilhelm, Mathias;Winkelhardt, Dirk;Wolski, Witold E.;Xi, Muyao
Proceedings of the EuBIC-MS developers meeting 2023
Journal of Proteomics
2024
305
105246

Gabriel, Wassim;Picciani, Mario;The, Matthew;Wilhelm, Mathias
Deep Learning-Assisted Analysis of Immunopeptidomics Data
Methods in Molecular Biology
Springer US
2024

Kalhor, Mostafa;Lapin, Joel;Picciani, Mario;Wilhelm, Mathias
Rescoring Peptide Spectrum Matches: Boosting Proteomics Performance by Integrating Peptide Property Predictors into Peptide Identification
Molecular & Cellular Proteomics
2024
100798

Adams, Charlotte;Gabriel, Wassim;Laukens, Kris;Picciani, Mario;Wilhelm, Mathias;Bittremieux, Wout;Boonen, Kurt
Fragment ion intensity prediction improves the identification rate of non-tryptic peptides in timsTOF
Nature Communications
2024
15
1

Klaproth-Andrade, Daniela;Hingerl, Johannes;Bruns, Yanik;Smith, Nicholas H.;Träuble, Jakob;Wilhelm, Mathias;Gagneur, Julien
Deep learning-driven fragment ion series classification enables highly precise and sensitive de novo peptide sequencing
Nature Communications
2024
15
1