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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 -
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 -
Community-driven advances in computational mass spectrometry: The perspective of EuBIC-MS members2026 Journal of Proteomics article Chemistry Advanced Proteomics Techniques and Applications Open access
Dirk Winkelhardt, Julia Patricia Schessner, Sven Berres, Alireza Nameni, Armin Soleymaniniya, Ayla Schröder, +17 more
0citations -
Insights from the First Phosphopeptide Challenge of the MS Resource Pillar of the HUPO Human Proteome Project2020 Journal of Proteome Research article Chemistry Advanced Proteomics Techniques and Applications Open access
Michael R. Hoopmann, Ulrike Kusebauch, Magnus Palmblad, Nuno Bandeira, David D. Shteynberg, Ling-jie He, +5 more
10citations -
Improving Identification of In-organello Protein-Protein Interactions Using an Affinity-enrichable, Isotopically Coded, and Mass Spectrometry-cleavable Chemical Crosslinker2020 Molecular & Cellular Proteomics article Chemistry Advanced Proteomics Techniques and Applications Open access
Karl A.T. Makepeace, Yassene Mohammed, Elena L. Rudashevskaya, Evgeniy V. Petrotchenko, F.‐Nora Vögtle, Chris Meisinger, +2 more
50citations