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Instrument-Software Synergy in Proteomics: Systematic Evaluation Across Mass Spectrometry Platforms, Search Engines, and Rescoring Methods2026 Zenodo (CERN European Organization for Nuclear Research) preprint Chemistry Advanced Proteomics Techniques and Applications Open access
Sander Heyndrickx, Ralf Gabriels, Robbin Bouwmeester, Robbe Devreese, Arthur Declercq, Lennart Martens, +7 more
0citations -
Instrument-Software Synergy in Proteomics: Systematic Evaluation Across Mass Spectrometry Platforms, Search Engines, and Rescoring Methods2026 Zenodo (CERN European Organization for Nuclear Research) preprint Chemistry Advanced Proteomics Techniques and Applications Open access
Sander Heyndrickx, Ralf Gabriels, Robbin Bouwmeester, Robbe Devreese, Arthur Declercq, Lennart Martens, +7 more
0citations -
Instrument–Software Synergy in Proteomics: Systematic Evaluation across Mass Spectrometry Platforms, Search Engines, and Rescoring Methods2026 Journal of Proteome Research article Chemistry Advanced Proteomics Techniques and Applications Open access
Sander Heyndrickx, Robbin Bouwmeester, Arthur Declercq, Robbe Devreese, Magnus Palmblad, Wout Bittremieux, +7 more
0citations -
ProteoBench: the community-curated platform for comparing proteomics data analysis workflows2025 bioRxiv (Cold Spring Harbor Laboratory) preprint Chemistry Advanced Proteomics Techniques and Applications Open access
Robbe Devreese, Caroline Jachmann, Bart Van Puyvelde, Holda A. Anagho, Witold Wolski, Henry Emanuel Webel, +44 more
6citations -
WOMBAT-P: Benchmarking Label-Free Proteomics Data Analysis Workflows2023 Journal of Proteome Research article Chemistry Advanced Proteomics Techniques and Applications Open access
David Bouyssié, Pınar Altıner, Salvador Capella-Gutiérrez, José M. Fernández, Yanick Paco Hagemeijer, Peter L. Horvatovich, +13 more
4citations -
WOMBAT-P: Benchmarking Label-Free Proteomics Data Analysis Workflows2023 bioRxiv (Cold Spring Harbor Laboratory) preprint Chemistry Advanced Proteomics Techniques and Applications Open access
David Bouyssié, Pınar Altıner, Salvador Capella-Gutiérrez, José M. Fernández, Yanick Paco Hagemeijer, Peter L. Horvatovich, +12 more
2citations -
PENGUIN: A rapid and efficient image preprocessing tool for multiplexed spatial proteomics2024 Computational and Structural Biotechnology Journal article Biochemistry, Genetics and Molecular Biology Cell Image Analysis Techniques Open access
Ana Marta Sequeira, Marieke E. Ijsselsteijn, Miguel Rocha, Noel F.C.C. de Miranda
13citations -
PENGUIN: A rapid and efficient image preprocessing tool for multiplexed spatial proteomics2024 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Cell Image Analysis Techniques
Ana Marta Sequeira, Marieke E. Ijsselsteijn, Miguel Rocha, Noel F.C.C. de Miranda
3citations -
compareMS2 2.0: An Improved Software for Comparing Tandem Mass Spectrometry Datasets2022 Journal of Proteome Research article Chemistry Advanced Proteomics Techniques and Applications Open access
Rob Marissen, Madhushri Shrikant Varunjikar, Jeroen F. J. Laros, Josef Daniel Rasinger, Benjamin A. Neely, Magnus Palmblad
10citations -
2019 Association of Biomolecular Resource Facilities Multi-Laboratory Data-Independent Acquisition Proteomics Study2023 Journal of Biomolecular Techniques JBT article Chemistry Advanced Proteomics Techniques and Applications Open access cited by 1 patent
Joanna M Kirkpatrick, Paul M. Stemmer, Brian C. Searle, Laura E. Herring, LeRoy B. Martin, Mukul Kumar Midha, +6 more
1citations