Lennart Martens

Loop profile ORCID

Publication Activity (10 Years)

Years Active: 2015-2024
Publications (10 Years): 70

Top Venues

Journal of proteome research

Analytical chemistry

Nature communications

Nature microbiology

Universiteit Gent

Universiteit Gent (PHD)

This page only lists publications with an associated author ORCID identifier.

Affiliation History

Universiteit Gent Oct 01 2009

Belgium

Professor of Systems Biology :: Department of Biochemistry

VIB Oct 01 2009

Belgium

Group Leader :: Department of Medical Protein Research

European Bioinformatics Institute Jul 01 2006 - Sep 30 2009

United Kingdom

Senior Software Developer / Group Coordinator

VIB Mar 01 2002 - Jun 30 2006

Belgium

Ph.D. student :: Department of Medical Protein Research

Sydney-Tristar Development Company Sep 01 2000 - Feb 28 2002

Belgium

Developer / Technical Presales consultant / Framework Architect

Education History

Universiteit Gent

Belgium

PHD :: Department of Biochemistry

Universiteit Gent

Belgium

MSC

Universiteit Hasselt

Belgium

BSC

Publications

David Gomez-Zepeda, Danielle Arnold-Schild, Julian Beyrle, Arthur Declercq, Ralf Gabriels, Elena Kumm, Annica Preikschat, Mateusz Krzysztof Łącki, Aurélie Hirschler, Jeewan Babu Rijal, Christine Carapito, Lennart Martens, Ute Distler, Hansjörg Schild, Stefan Tenzer
Thunder-DDA-PASEF enables high-coverage immunopeptidomics and is boosted by MS 2 Rescore with MS 2 PIP timsTOF fragmentation prediction model. Nature communications 15 (1) (2024)
Emma Partiot, Aurélie Hirschler, Sophie Colomb, Willy Lutz, Tine Claeys, François Delalande, Maika S Deffieu, Yonis Bare, Judith R E Roels, Barbara Gorda, Joanna Bons, Domitille Callon, Laurent Andreoletti, Marc Labrousse, Frank M J Jacobs, Valérie Rigau, Benoit Charlot, Lennart Martens, Christine Carapito, Gowrishankar Ganesh, Raphaël Gaudin
Brain exposure to SARS-CoV-2 virions perturbs synaptic homeostasis. Nature microbiology (2024)
Louise M Buur, Arthur Declercq, Marina Strobl, Robbin Bouwmeester, Sven Degroeve, Lennart Martens, Viktoria Dorfer, Ralf Gabriels
MS 2 Rescore 3.0 Is a Modular, Flexible, and User-Friendly Platform to Boost Peptide Identifications, as Showcased with MS Amanda 3.0. Journal of proteome research (2024)
Emma Partiot, Aurélie Hirschler, Sophie Colomb, Willy Lutz, Tine Claeys, François Delalande, Maika S Deffieu, Yonis Bare, Judith R E Roels, Barbara Gorda, Joanna Bons, Domitille Callon, Laurent Andreoletti, Marc Labrousse, Frank M J Jacobs, Valérie Rigau, Benoit Charlot, Lennart Martens, Christine Carapito, Gowrishankar Ganesh, Raphaël Gaudin
Brain exposure to SARS-CoV-2 virions perturbs synaptic homeostasis. Nature microbiology 9 (5) (2024)
Tim Van Den Bossche, Pieter Verschaffelt, Tibo Vande Moortele, Peter Dawyndt, Lennart Martens, Bart Mesuere
Biodiversity Analysis of Metaproteomics Samples with Unipept: A Comprehensive Tutorial. Methods in molecular biology (Clifton, N.J.) 2836 (2024)
David Gomez-Zepeda, Danielle Arnold-Schild, Julian Beyrle, Arthur Declercq, Ralf Gabriels, Elena Kumm, Annica Preikschat, Mateusz Krzysztof Łącki, Aurélie Hirschler, Jeewan Babu Rijal, Christine Carapito, Lennart Martens, Ute Distler, Hansjörg Schild, Stefan Tenzer
Thunder-DDA-PASEF enables high-coverage immunopeptidomics and is boosted by MS 2 Rescore with MS 2 PIP timsTOF fragmentation prediction model. Nature communications 15 (1) (2024)
David Gomez-Zepeda, Danielle Arnold-Schild, Julian Beyrle, Arthur Declercq, Ralf Gabriels, Elena Kumm, Annica Preikschat, Mateusz Krzysztof Łącki, Aurélie Hirschler, Jeewan Babu Rijal, Christine Carapito, Lennart Martens, Ute Distler, Hansjörg Schild, Stefan Tenzer
Thunder-DDA-PASEF enables high-coverage immunopeptidomics and is boosted by MS 2 Rescore with MS 2 PIP timsTOF fragmentation prediction model. Nature communications 15 (1) (2024)
Emma Partiot, Aurélie Hirschler, Sophie Colomb, Willy Lutz, Tine Claeys, François Delalande, Maika S Deffieu, Yonis Bare, Judith R E Roels, Barbara Gorda, Joanna Bons, Domitille Callon, Laurent Andreoletti, Marc Labrousse, Frank M J Jacobs, Valérie Rigau, Benoit Charlot, Lennart Martens, Christine Carapito, Gowrishankar Ganesh, Raphaël Gaudin
Brain exposure to SARS-CoV-2 virions perturbs synaptic homeostasis. Nature microbiology (2024)
Emma Partiot, Aurélie Hirschler, Sophie Colomb, Willy Lutz, Tine Claeys, François Delalande, Maika S Deffieu, Yonis Bare, Judith R E Roels, Barbara Gorda, Joanna Bons, Domitille Callon, Laurent Andreoletti, Marc Labrousse, Frank M J Jacobs, Valérie Rigau, Benoit Charlot, Lennart Martens, Christine Carapito, Gowrishankar Ganesh, Raphaël Gaudin
Brain exposure to SARS-CoV-2 virions perturbs synaptic homeostasis. Nature microbiology 9 (5) (2024)
Arslan Siraj, Robbin Bouwmeester, Arthur Declercq, Luisa Welp, Aleksandar Chernev, Alexander Wulf, Henning Urlaub, Lennart Martens, Sven Degroeve, Oliver Kohlbacher, Timo Sachsenberg
Intensity and retention time prediction improves the rescoring of protein-nucleic acid cross-links. Proteomics 24 (8) (2024)
David Gomez-Zepeda, Danielle Arnold-Schild, Julian Beyrle, Arthur Declercq, Ralf Gabriels, Elena Kumm, Annica Preikschat, Mateusz Krzysztof Łącki, Aurélie Hirschler, Jeewan Babu Rijal, Christine Carapito, Lennart Martens, Ute Distler, Hansjörg Schild, Stefan Tenzer
Thunder-DDA-PASEF enables high-coverage immunopeptidomics and is boosted by MS 2 Rescore with MS 2 PIP timsTOF fragmentation prediction model. Nature communications 15 (1) (2024)
Louise M Buur, Arthur Declercq, Marina Strobl, Robbin Bouwmeester, Sven Degroeve, Lennart Martens, Viktoria Dorfer, Ralf Gabriels
MS 2 Rescore 3.0 Is a Modular, Flexible, and User-Friendly Platform to Boost Peptide Identifications, as Showcased with MS Amanda 3.0. Journal of proteome research 23 (8) (2024)
Elke Debrie, Milan Malfait, Ralf Gabriels, Arthur Declerq, Adriaan Sticker, Lennart Martens, Lieven Clement
Quality Control for the Target Decoy Approach for Peptide Identification. Journal of proteome research 22 (2) (2023)
Tine Claeys, Maxime Menu, Robbin Bouwmeester, Kris Gevaert, Lennart Martens
Machine Learning on Large-Scale Proteomics Data Identifies Tissue and Cell-Type Specific Proteins. Journal of proteome research (2023)
Benjamin A Neely, Viktoria Dorfer, Lennart Martens, Isabell Bludau, Robbin Bouwmeester, Sven Degroeve, Eric W Deutsch, Siegfried Gessulat, Lukas Käll, Pawel Palczynski, Samuel H Payne, Tobias Greisager Rehfeldt, Tobias K Schmidt, Veit Schwämmle, Julian Uszkoreit, Juan Antonio Vizcaino, Mathias Wilhelm, Magnus Palmblad
Toward an Integrated Machine Learning Model of a Proteomics Experiment. Journal of proteome research (2023)
Elke Debrie, Milan Malfait, Ralf Gabriels, Arthur Declerq, Adriaan Sticker, Lennart Martens, Lieven Clement
Quality Control for the Target Decoy Approach for Peptide Identification. Journal of proteome research 22 (2) (2023)
Elke Debrie, Milan Malfait, Ralf Gabriels, Arthur Declerq, Adriaan Sticker, Lennart Martens, Lieven Clement
Quality Control for the Target Decoy Approach for Peptide Identification. Journal of proteome research (2023)
Benjamin A Neely, Viktoria Dorfer, Lennart Martens, Isabell Bludau, Robbin Bouwmeester, Sven Degroeve, Eric W Deutsch, Siegfried Gessulat, Lukas Käll, Pawel Palczynski, Samuel H Payne, Tobias Greisager Rehfeldt, Tobias K Schmidt, Veit Schwämmle, Julian Uszkoreit, Juan Antonio Vizcaino, Mathias Wilhelm, Magnus Palmblad
Toward an Integrated Machine Learning Model of a Proteomics Experiment. Journal of proteome research 22 (3) (2023)
Tine Claeys, Tim Van Den Bossche, Yasset Perez Riverol, Kris Gevaert, Juan Antonio Vizcaino, Lennart Martens
lesSDRF is more: maximizing the value of proteomics data through streamlined metadata annotation. Nature communications 14 (1) (2023)
Morgane Boone, Pathmanaban Ramasamy, Jasper Zuallaert, Robbin Bouwmeester, Berre Van Moer, Davy Maddelein, Demet Turan, Niels Hulstaert, Hannah Eeckhaut, Elien Vandermarliere, Lennart Martens, Sven Degroeve, Wesley De Neve, Wim Vranken, Nico Callewaert
Author Correction: Massively parallel interrogation of protein fragment secretability using SECRiFY reveals features influencing secretory system transit. Nature communications 14 (1) (2023)
Benjamin A Neely, Viktoria Dorfer, Lennart Martens, Isabell Bludau, Robbin Bouwmeester, Sven Degroeve, Eric W Deutsch, Siegfried Gessulat, Lukas Käll, Pawel Palczynski, Samuel H Payne, Tobias Greisager Rehfeldt, Tobias K Schmidt, Veit Schwämmle, Julian Uszkoreit, Juan Antonio Vizcaino, Mathias Wilhelm, Magnus Palmblad
Toward an Integrated Machine Learning Model of a Proteomics Experiment. Journal of proteome research 22 (3) (2023)
Benjamin A Neely, Viktoria Dorfer, Lennart Martens, Isabell Bludau, Robbin Bouwmeester, Sven Degroeve, Eric W Deutsch, Siegfried Gessulat, Lukas Käll, Pawel Palczynski, Samuel H Payne, Tobias Greisager Rehfeldt, Tobias K Schmidt, Veit Schwämmle, Julian Uszkoreit, Juan Antonio Vizcaino, Mathias Wilhelm, Magnus Palmblad
Toward an Integrated Machine Learning Model of a Proteomics Experiment. Journal of proteome research 22 (3) (2023)
Morgane Boone, Pathmanaban Ramasamy, Jasper Zuallaert, Robbin Bouwmeester, Berre Van Moer, Davy Maddelein, Demet Turan, Niels Hulstaert, Hannah Eeckhaut, Elien Vandermarliere, Lennart Martens, Sven Degroeve, Wesley De Neve, Wim Vranken, Nico Callewaert
Author Correction: Massively parallel interrogation of protein fragment secretability using SECRiFY reveals features influencing secretory system transit. Nature communications 14 (1) (2023)
Arthur Declercq, Robbin Bouwmeester, Cristina Chiva, Eduard Sabidó, Aurélie Hirschler, Christine Carapito, Lennart Martens, Sven Degroeve, Ralf Gabriels
Updated MS²PIP web server supports cutting-edge proteomics applications. Nucleic acids research (2023)
Benjamin A Neely, Viktoria Dorfer, Lennart Martens, Isabell Bludau, Robbin Bouwmeester, Sven Degroeve, Eric W Deutsch, Siegfried Gessulat, Lukas Käll, Pawel Palczynski, Samuel H Payne, Tobias Greisager Rehfeldt, Tobias K Schmidt, Veit Schwämmle, Julian Uszkoreit, Juan Antonio Vizcaino, Mathias Wilhelm, Magnus Palmblad
Toward an Integrated Machine Learning Model of a Proteomics Experiment. Journal of proteome research 22 (3) (2023)
Benjamin A Neely, Viktoria Dorfer, Lennart Martens, Isabell Bludau, Robbin Bouwmeester, Sven Degroeve, Eric W Deutsch, Siegfried Gessulat, Lukas Käll, Pawel Palczynski, Samuel H Payne, Tobias Greisager Rehfeldt, Tobias K Schmidt, Veit Schwämmle, Julian Uszkoreit, Juan Antonio Vizcaino, Mathias Wilhelm, Magnus Palmblad
Toward an Integrated Machine Learning Model of a Proteomics Experiment. Journal of proteome research 22 (3) (2023)
Pieter Verschaffelt, Alessandro Tanca, Marcello Abbondio, Tim Van Den Bossche, Tibo Vande Moortele, Peter Dawyndt, Lennart Martens, Bart Mesuere
Unipept Desktop 2.0: Construction of Targeted Reference Protein Databases for Metaproteogenomics Analyses. Journal of proteome research (2023)
Elke Debrie, Milan Malfait, Ralf Gabriels, Arthur Declerq, Adriaan Sticker, Lennart Martens, Lieven Clement
Quality Control for the Target Decoy Approach for Peptide Identification. Journal of proteome research 22 (2) (2023)
Ralf Gabriels, Arthur Declercq, Robbin Bouwmeester, Sven Degroeve, Lennart Martens
psm_utils: A High-Level Python API for Parsing and Handling Peptide-Spectrum Matches and Proteomics Search Results. Journal of proteome research (2022)
Bart Van Puyvelde, Katleen Van Uytfanghe, Laurence Van Oudenhove, Ralf Gabriels, Tessa Van Royen, Arne Matthys, Morteza Razavi, Richard Yip, Terry Pearson, Nicolas Drouin, Jan Claereboudt, Dominic Foley, Robert Wardle, Kevin Wyndham, Thomas Hankemeier, Donald J L Jones, Xavier Saelens, Geert Martens, Christophe Pol Stove, Dieter Deforce, Lennart Martens, Johannes P C Vissers, N Leigh Anderson, Maarten Dhaenens
Cov 2 MS: An Automated and Quantitative Matrix-Independent Assay for Mass Spectrometric Measurement of SARS-CoV-2 Nucleocapsid Protein. Analytical chemistry 94 (50) (2022)
Bart Van Puyvelde, Katleen Van Uytfanghe, Laurence Van Oudenhove, Ralf Gabriels, Tessa Van Royen, Arne Matthys, Morteza Razavi, Richard Yip, Terry Pearson, Nicolas Drouin, Jan Claereboudt, Dominic Foley, Robert Wardle, Kevin Wyndham, Thomas Hankemeier, Donald J L Jones, Xavier Saelens, Geert Martens, Christophe Pol Stove, Dieter Deforce, Lennart Martens, Johannes P C Vissers, N Leigh Anderson, Maarten Dhaenens
Cov 2 MS: An Automated and Quantitative Matrix-Independent Assay for Mass Spectrometric Measurement of SARS-CoV-2 Nucleocapsid Protein. Analytical chemistry 94 (50) (2022)
Bart Van Puyvelde, Katleen Van Uytfanghe, Laurence Van Oudenhove, Ralf Gabriels, Tessa Van Royen, Arne Matthys, Morteza Razavi, Richard Yip, Terry Pearson, Nicolas Drouin, Jan Claereboudt, Dominic Foley, Robert Wardle, Kevin Wyndham, Thomas Hankemeier, Donald J L Jones, Xavier Saelens, Geert Martens, Christophe Pol Stove, Dieter Deforce, Lennart Martens, Johannes P C Vissers, N Leigh Anderson, Maarten Dhaenens
Cov 2 MS: An Automated and Quantitative Matrix-Independent Assay for Mass Spectrometric Measurement of SARS-CoV-2 Nucleocapsid Protein. Analytical chemistry (2022)
Genet Abay Shiferaw, Ralf Gabriels, Robbin Bouwmeester, Tim Van Den Bossche, Elien Vandermarliere, Lennart Martens, Pieter-Jan Volders
Sensitive and Specific Spectral Library Searching with CompOmics Spectral Library Searching Tool and Percolator. Journal of proteome research 21 (5) (2022)
Bart Van Puyvelde, Katleen Van Uytfanghe, Laurence Van Oudenhove, Ralf Gabriels, Tessa Van Royen, Arne Matthys, Morteza Razavi, Richard Yip, Terry Pearson, Nicolas Drouin, Jan Claereboudt, Dominic Foley, Robert Wardle, Kevin Wyndham, Thomas Hankemeier, Donald J L Jones, Xavier Saelens, Geert Martens, Christophe Pol Stove, Dieter Deforce, Lennart Martens, Johannes P C Vissers, N Leigh Anderson, Maarten Dhaenens
Cov 2 MS: An Automated and Quantitative Matrix-Independent Assay for Mass Spectrometric Measurement of SARS-CoV-2 Nucleocapsid Protein. Analytical chemistry 94 (50) (2022)
Bart Van Puyvelde, Katleen Van Uytfanghe, Laurence Van Oudenhove, Ralf Gabriels, Tessa Van Royen, Arne Matthys, Morteza Razavi, Richard Yip, Terry Pearson, Nicolas Drouin, Jan Claereboudt, Dominic Foley, Robert Wardle, Kevin Wyndham, Thomas Hankemeier, Donald J L Jones, Xavier Saelens, Geert Martens, Christophe Pol Stove, Dieter Deforce, Lennart Martens, Johannes P C Vissers, N Leigh Anderson, Maarten Dhaenens
Cov 2 MS: An Automated and Quantitative Matrix-Independent Assay for Mass Spectrometric Measurement of SARS-CoV-2 Nucleocapsid Protein. Analytical chemistry 94 (50) (2022)
Ralf Gabriels, Arthur Declercq, Robbin Bouwmeester, Sven Degroeve, Lennart Martens
psm_utils: A High-Level Python API for Parsing and Handling Peptide-Spectrum Matches and Proteomics Search Results. Journal of proteome research 22 (2) (2022)
Bart Van Puyvelde, Katleen Van Uytfanghe, Laurence Van Oudenhove, Ralf Gabriels, Tessa Van Royen, Arne Matthys, Morteza Razavi, Richard Yip, Terry Pearson, Nicolas Drouin, Jan Claereboudt, Dominic Foley, Robert Wardle, Kevin Wyndham, Thomas Hankemeier, Donald J L Jones, Xavier Saelens, Geert Martens, Christophe Pol Stove, Dieter Deforce, Lennart Martens, Johannes P C Vissers, N Leigh Anderson, Maarten Dhaenens
Cov 2 MS: An Automated and Quantitative Matrix-Independent Assay for Mass Spectrometric Measurement of SARS-CoV-2 Nucleocapsid Protein. Analytical chemistry 94 (50) (2022)
Bart Van Puyvelde, Simon Daled, Sander Willems, Ralf Gabriels, Anne Gonzalez de Peredo, Karima Chaoui, Emmanuelle Mouton-Barbosa, David Bouyssié, Kurt Boonen, Christopher J Hughes, Lee A Gethings, Yasset Perez Riverol, Nic Bloomfield, Stephen Tate, Odile Schiltz, Lennart Martens, Dieter Deforce, Maarten Dhaenens
A comprehensive LFQ benchmark dataset on modern day acquisition strategies in proteomics. Scientific data 9 (1) (2022)
Kay Schallert, Pieter Verschaffelt, Bart Mesuere, Dirk Benndorf, Lennart Martens, Tim Van Den Bossche
Pout2Prot : An Efficient Tool to Create Protein (Sub)groups from Percolator Output Files. Journal of proteome research 21 (4) (2022)
Lien Provez, Bart Van Puyvelde, Laura Corveleyn, Nina Demeulemeester, Sigrid Verhelst, Béatrice Lintermans, Simon Daled, Juliette Roels, Lieven Clement, Lennart Martens, Dieter Deforce, Pieter Van Vlierberghe, Maarten Dhaenens
An interactive mass spectrometry atlas of histone posttranslational modifications in T-cell acute leukemia. Scientific data 9 (1) (2022)
Ralf Gabriels, Arthur Declercq, Robbin Bouwmeester, Sven Degroeve, Lennart Martens
psm_utils: A High-Level Python API for Parsing and Handling Peptide-Spectrum Matches and Proteomics Search Results. Journal of proteome research 22 (2) (2022)
Bart Van Puyvelde, Katleen Van Uytfanghe, Laurence Van Oudenhove, Ralf Gabriels, Tessa Van Royen, Arne Matthys, Morteza Razavi, Richard Yip, Terry Pearson, Nicolas Drouin, Jan Claereboudt, Dominic Foley, Robert Wardle, Kevin Wyndham, Thomas Hankemeier, Donald J L Jones, Xavier Saelens, Geert Martens, Christophe Pol Stove, Dieter Deforce, Lennart Martens, Johannes P C Vissers, N Leigh Anderson, Maarten Dhaenens
Cov 2 MS: An Automated and Quantitative Matrix-Independent Assay for Mass Spectrometric Measurement of SARS-CoV-2 Nucleocapsid Protein. Analytical chemistry 94 (50) (2022)
Ralf Gabriels, Arthur Declercq, Robbin Bouwmeester, Sven Degroeve, Lennart Martens
psm_utils: A High-Level Python API for Parsing and Handling Peptide-Spectrum Matches and Proteomics Search Results. Journal of proteome research 22 (2) (2022)
Pathmanaban Ramasamy, Elien Vandermarliere, Wim F Vranken, Lennart Martens
Panoramic Perspective on Human Phosphosites. Journal of proteome research 21 (8) (2022)
Pieter Verschaffelt, Tim Van Den Bossche, Lennart Martens, Peter Dawyndt, Bart Mesuere
Unipept Desktop: A Faster, More Powerful Metaproteomics Results Analysis Tool. Journal of proteome research 20 (4) (2021)
Bart Van Puyvelde, Katleen Van Uytfanghe, Olivier Tytgat, Laurence Van Oudenhove, Ralf Gabriels, Robbin Bouwmeester, Simon Daled, Tim Van Den Bossche, Pathmanaban Ramasamy, Sigrid Verhelst, Laura De Clerck, Laura Corveleyn, Sander Willems, Nathan Debunne, Evelien Wynendaele, Bart De Spiegeleer, Peter Judak, Kris Roels, Laurie De Wilde, Peter Van Eenoo, Tim Reyns, Marc Cherlet, Emmie Dumont, Griet Debyser, Ruben t'Kindt, Koen Sandra, Surya Gupta, Nicolas Drouin, Amy Harms, Thomas Hankemeier, Donald J L Jones, Pankaj Gupta, Dan Lane, Catherine S Lane, Said El Ouadi, Jean-Baptiste Vincendet, Nick Morrice, Stuart Oehrle, Nikunj Tanna, Steve Silvester, Sally Hannam, Florian C Sigloch, Andrea Bhangu-Uhlmann, Jan Claereboudt, N Leigh Anderson, Morteza Razavi, Sven Degroeve, Lize Cuypers, Christophe Pol Stove, Katrien Lagrou, Geert A Martens, Dieter Deforce, Lennart Martens, Johannes P C Vissers, Maarten Dhaenens
Cov-MS: A Community-Based Template Assay for Mass-Spectrometry-Based Protein Detection in SARS-CoV-2 Patients. JACS Au 1 (6) (2021)
Morgane Boone, Pathmanaban Ramasamy, Jasper Zuallaert, Robbin Bouwmeester, Berre Van Moer, Davy Maddelein, Demet Turan, Niels Hulstaert, Hannah Eeckhaut, Elien Vandermarliere, Lennart Martens, Sven Degroeve, Wesley De Neve, Wim Vranken, Nico Callewaert
Massively parallel interrogation of protein fragment secretability using SECRiFY reveals features influencing secretory system transit. Nature communications 12 (1) (2021)
Pieter Verschaffelt, Tim Van Den Bossche, Wassim Gabriel, Burdukiewicz Michał, Alessio Soggiu, Lennart Martens, Bernhard Y Renard, Henning Schiebenhoefer, Bart Mesuere
MegaGO: A Fast Yet Powerful Approach to Assess Functional Gene Ontology Similarity across Meta-Omics Data Sets. Journal of proteome research 20 (4) (2021)
Robbin Bouwmeester, Ralf Gabriels, Niels Hulstaert, Lennart Martens, Sven Degroeve
DeepLC can predict retention times for peptides that carry as-yet unseen modifications. Nature methods 18 (11) (2021)
Tim Van Den Bossche, Benoit Josef Kunath, Kay Schallert, Stephanie S Schäpe, Paul E Abraham, Jean Armengaud, Magnus Øverlie Arntzen, Ariane Bassignani, Dirk Benndorf, Stephan Fuchs, Richard J Giannone, Timothy J Griffin, Live Heldal Hagen, Rashi Halder, Céline Henry, Robert L Hettich, Robert Heyer, Pratik D Jagtap, Nico Jehmlich, Marlene Jensen, Catherine Juste, Manuel Kleiner, Olivier Langella, Theresa Lehmann, Emma Leith, Patrick May, Bart Mesuere, Guylaine Miotello, Samantha L Peters, Olivier Pible, Pedro T Queiros, Udo Reichl, Bernhard Y Renard, Henning Schiebenhoefer, Alexander Sczyrba, Alessandro Tanca, Kathrin Trappe, Jean-Pierre Trezzi, Sergio Uzzau, Pieter Verschaffelt, Martin Von Bergen, Paul Wilmes, Maximilian Wolf, Lennart Martens, Thilo Muth
Critical Assessment of MetaProteome Investigation (CAMPI): a multi-laboratory comparison of established workflows. Nature communications 12 (1) (2021)
Tim Van Den Bossche, Pieter Verschaffelt, Kay Schallert, Harald Barsnes, Peter Dawyndt, Dirk Benndorf, Bernhard Y Renard, Bart Mesuere, Lennart Martens, Thilo Muth
Connecting MetaProteomeAnalyzer and PeptideShaker to Unipept for Seamless End-to-End Metaproteomics Data Analysis. Journal of proteome research 19 (8) (2020)
Pathmanaban Ramasamy, Demet Turan, Natalia Tichshenko, Niels Hulstaert, Elien Vandermarliere, Wim Vranken, Lennart Martens
Scop3P: A Comprehensive Resource of Human Phosphosites within Their Full Context. Journal of proteome research 19 (8) (2020)
Genet Abay Shiferaw, Elien Vandermarliere, Niels Hulstaert, Ralf Gabriels, Lennart Martens, Pieter-Jan Volders
COSS: A Fast and User-Friendly Tool for Spectral Library Searching. Journal of proteome research 19 (7) (2020)
Robbin Bouwmeester, Lennart Martens, Sven Degroeve
Generalized Calibration Across Liquid Chromatography Setups for Generic Prediction of Small-Molecule Retention Times. Analytical chemistry 92 (9) (2020)
Ludger J E Goeminne, Adriaan Sticker, Lennart Martens, Kris Gevaert, Lieven Clement
MSqRob Takes the Missing Hurdle: Uniting Intensity- and Count-Based Proteomics. Analytical chemistry 92 (9) (2020)
Robbin Bouwmeester, Ralf Gabriels, Tim Van Den Bossche, Lennart Martens, Sven Degroeve
The Age of Data-Driven Proteomics: How Machine Learning Enables Novel Workflows. Proteomics 20 (21-22) (2020)
Hristina Ivanova, Larry E Wagner, Akihiko Tanimura, Elien Vandermarliere, Tomas Luyten, Kirsten Welkenhuyzen, Kamil J Alzayady, Liwei Wang, Kozo Hamada, Katsuhiko Mikoshiba, Humbert De Smedt, Lennart Martens, David I Yule, Jan B Parys, Geert Bultynck
Bcl-2 and IP3 compete for the ligand-binding domain of IP3Rs modulating Ca2+ signaling output. Cellular and molecular life sciences : CMLS 76 (19) (2019)
Niels Hulstaert, Jim Shofstahl, Timo Sachsenberg, Mathias Walzer, Harald Barsnes, Lennart Martens, Yasset Perez Riverol
ThermoRawFileParser: Modular, Scalable, and Cross-Platform RAW File Conversion. Journal of proteome research 19 (1) (2019)
Robbin Bouwmeester, Lennart Martens, Sven Degroeve
Comprehensive and Empirical Evaluation of Machine Learning Algorithms for Small Molecule LC Retention Time Prediction. Analytical chemistry 91 (5) (2019)
Adriaan Sticker, Lennart Martens, Lieven Clement
Mass spectrometrists should search for all peptides, but assess only the ones they care about. Nature methods 14 (7) (2019)
Henning Schiebenhoefer, Tim Van Den Bossche, Stephan Fuchs, Bernhard Y Renard, Thilo Muth, Lennart Martens
Challenges and promise at the interface of metaproteomics and genomics: an overview of recent progress in metaproteogenomic data analysis. Expert review of proteomics 16 (5) (2019)
Andrea Argentini, An Staes, Bjoern Andreas Gruening, Subina Mehta, Caleb W Easterly, Timothy J Griffin, Pratik D Jagtap, Francis Impens, Lennart Martens
Update on the moFF Algorithm for Label-Free Quantitative Proteomics. Journal of proteome research 18 (2) (2018)
Robbert Gurdeep Singh, Alessandro Tanca, Antonio Palomba, Felix Van der Jeugt, Pieter Verschaffelt, Sergio Uzzau, Lennart Martens, Peter Dawyndt, Bart Mesuere
Unipept 4.0: Functional Analysis of Metaproteome Data. Journal of proteome research 18 (2) (2018)
Andrea Argentini, Ludger J E Goeminne, Kenneth Verheggen, Niels Hulstaert, An Staes, Lieven Clement, Lennart Martens
moFF: a robust and automated approach to extract peptide ion intensities. Nature methods 13 (12) (2018)
Lukasz Kreft, Demet Turan, Niels Hulstaert, Alexander Botzki, Lennart Martens, Elien Vandermarliere
Scop3D: Online Visualization of Mutation Rates on Protein Structure. Journal of proteome research 18 (2) (2018)
Ana S C Silva, Andrew Palmer, Vitaly Kovalev, Artem Tarasov, Theodore Alexandrov, Lennart Martens, Sven Degroeve
Data-Driven Rescoring of Metabolite Annotations Significantly Improves Sensitivity. Analytical chemistry 90 (19) (2018)
Surya Gupta, Kenneth Verheggen, Jan Tavernier, Lennart Martens
Unbiased Protein Association Study on the Public Human Proteome Reveals Biological Connections between Co-Occurring Protein Pairs. Journal of proteome research 16 (6) (2017)
Kenneth Verheggen, Pieter-Jan Volders, Pieter Mestdagh, Gerben Menschaert, Petra Van Damme, Kris Gevaert, Lennart Martens, Jo Vandesompele
Noncoding after All: Biases in Proteomics Data Do Not Explain Observed Absence of lncRNA Translation Products. Journal of proteome research 16 (7) (2017)
Thilo Muth, Fabian Kohrs, Robert Heyer, Dirk Benndorf, Erdmann Rapp, Udo Reichl, Lennart Martens, Bernhard Y Renard
MPA Portable: A Stand-Alone Software Package for Analyzing Metaproteome Samples on the Go. Analytical chemistry 90 (1) (2017)
Patrick Willems, Elvis Ndah, Veronique Jonckheere, Simon Stael, Adriaan Sticker, Lennart Martens, Frank Van Breusegem, Kris Gevaert, Petra Van Damme
N-terminal Proteomics Assisted Profiling of the Unexplored Translation Initiation Landscape in Arabidopsis thaliana. Molecular & cellular proteomics : MCP 16 (6) (2017)
Juan A Vizcaíno, Eric W Deutsch, Rui Wang, Attila Csordas, Florian Reisinger, Daniel Ríos, José A Dianes, Zhi Sun, Terry Farrah, Nuno Bandeira, Pierre-Alain Binz, Ioannis Xenarios, Martin Eisenacher, Gerhard Mayer, Laurent Gatto, Alex Campos, Robert J Chalkley, Hans-Joachim Kraus, Juan Pablo Albar, Salvador Martinez-Bartolomé, Rolf Apweiler, Gilbert S Omenn, Lennart Martens, Andrew R Jones, Henning Hermjakob
ProteomeXchange provides globally coordinated proteomics data submission and dissemination. Nature biotechnology 32 (3) (2015)

Lennart Martens.css-eqlu8i{font-size:small;padding-left:4px;}

Publication Activity (10 Years)

Top Topics

Top Venues

Lennart Martens