Author details

Full Name

Lennart Martens

Affiliation

ORCID

Career Start Year

1990

Papers

277

H Index

Expertise

CM4AI Collaborator

PMID	Paper Title	Journal Title	Published Year
37540201	Ionmob: a Python package for prediction of peptide collisional cross-section values.		2023
37875519	lesSDRF is more: maximizing the value of proteomics data through streamlined metadata annotation.	Nat Commun	2023
36963412	Machine Learning on Large-Scale Proteomics Data Identifies Tissue and Cell-Type Specific Proteins.		2023
36828852	Author Correction: Massively parallel interrogation of protein fragment secretability using SECRiFY reveals features influencing secretory system transit.	Nat Commun	2023
36648107	Quality Control for the Target Decoy Approach for Peptide Identification.		2023
36508242	psm_utils: A High-Level Python API for Parsing and Handling Peptide-Spectrum Matches and Proteomics Search Results.		2023
37140039	Updated MSÂ²PIP web server supports cutting-edge proteomics applications.		2023
37459443	Unipept Desktop 2.0: Construction of Targeted Reference Protein Databases for Metaproteogenomics Analyses.		2023
37129543	PepGM: a probabilistic graphical model for taxonomic inference of viral proteome samples with associated confidence scores.		2023
36744821	Toward an Integrated Machine Learning Model of a Proteomics Experiment.	J Proteome Res	2023
35087108	Orthogonal proteomics methods to unravel the HOTAIR interactome.	Scientific Reports	2022
36243775	An interactive mass spectrometry atlas of histone posttranslational modifications in T-cell acute leukemia.	Scientific data	2022
36241641	Immunopeptidomics-based design of mRNA vaccine formulations against Listeria monocytogenes.	Nature Communications	2022
35446579	Sensitive and Specific Spectral Library Searching with CompOmics Spectral Library Searching Tool and Percolator.	Journal of Proteome Research	2022
35803561	MSRescore: Data-Driven Rescoring Dramatically Boosts Immunopeptide Identification Rates.	Molecular and Cellular Proteomics	2022
35793420	Panoramic Perspective on Human Phosphosites.	Journal of Proteome Research	2022
36490367	CovMS: An Automated and Quantitative Matrix-Independent Assay for Mass Spectrometric Measurement of SARS-CoV-2 Nucleocapsid Protein.		2022
34390575	Unipept Visualizations: an interactive visualization library for biological data.		2022
35143215	: An Efficient Tool to Create Protein (Sub)groups from Percolator Output Files.	Journal of Proteome Research	2022
34711972	DeepLC can predict retention times for peptides that carry as-yet unseen modifications.	Nature Methods	2021
33998808	Personalized Proteome: Comparing Proteogenomics and Open Variant Search Approaches for Single Amino Acid Variant Detection.	J Proteome Res	2021
33661648	MegaGO: A Fast Yet Powerful Approach to Assess Functional Gene Ontology Similarity across Meta-Omics Data Sets.	J Proteome Res	2021
34254058	Cov-MS: A Community-Based Template Assay for Mass-Spectrometry-Based Protein Detection in SARS-CoV-2 Patients.		2021
33823297	Spectral Prediction Features as a Solution for the Search Space Size Problem in Proteogenomics.	Mol Cell Proteomics	2021
33976128	The RNA landscape of the human placenta in health and disease.	Nature Communications	2021
33711481	Data Management of Sensitive Human Proteomics Data: Current Practices, Recommendations, and Perspectives for the Future.	Mol Cell Proteomics	2021
33401902	Unipept Desktop: A Faster, More Powerful Metaproteomics Results Analysis Tool.	Journal of Proteome Research	2021
34741024	Massively parallel interrogation of protein fragment secretability using SECRiFY reveals features influencing secretory system transit.	Nat Commun	2021
34911965	Critical Assessment of MetaProteome Investigation (CAMPI): a multi-laboratory comparison of established workflows.	Nat Commun	2021
28902424	Anatomy and evolution of database search engines-a central component of mass spectrometry based proteomic workflows.	Mass Spectrometry Reviews	2020
32267083	The Age of Data-Driven Proteomics: How Machine Learning Enables Novel Workflows.	Proteomics	2020
32431147	Connecting MetaProteomeAnalyzer and PeptideShaker to Unipept for Seamless End-to-End Metaproteomics Data Analysis.	Journal of Proteome Research	2020
32321741	Robust Summarization and Inference in Proteome-wide Label-free Quantification.	Molecular and Cellular Proteomics	2020
32198462	Publisher Correction: Differences in antigenic sites and other functional regions between genotype A and G mumps virus surface proteins.	Sci Rep	2020
32258910	Simple Peptide Quantification Approach for MS-Based Proteomics Quality Control.	ACS Omega	2020
32404488	The CEP5 Peptide Promotes Abiotic Stress Tolerance, As Revealed by Quantitative Proteomics, and Attenuates the AUX/IAA Equilibrium in .	Molecular and Cellular Proteomics	2020
32227882	MSqRob Takes the Missing Hurdle: Uniting Intensity- and Count-Based Proteomics.	Analytical Chemistry	2020
32396199	Community standards for open cell migration data.	Gigascience	2020
32281370	Generalized Calibration Across Liquid Chromatography Setups for Generic Prediction of Small-Molecule Retention Times.	Analytical Chemistry	2020
32384242	COSS: A Fast and User-Friendly Tool for Spectral Library Searching.	Journal of Proteome Research	2020
32492134	Unipept CLI 2.0: adding support for visualizations and functional annotations.		2020
32650610	Precursor Intensity-Based Label-Free Quantification Software Tools for Proteomic and Multi-Omic Analysis within the Galaxy Platform.	Proteomes	2020
32508104	Scop3P: A Comprehensive Resource of Human Phosphosites within Their Full Context.	Journal of Proteome Research	2020
30989245	Bcl-2 and IP compete for the ligand-binding domain of IPRs modulating Ca signaling output.	Cellular and Molecular Life Sciences	2019
30511867	Update on the moFF Algorithm for Label-Free Quantitative Proteomics.	J Proteome Res	2019
30502489	Sera from different age cohorts in Belgium show limited cross-neutralization between the mumps vaccine and outbreak strains.	Clinical Microbiology and Infection	2019
30540477	Scop3D: Online Visualization of Mutation Rates on Protein Structure.	Journal of Proteome Research	2019
30052834	DoRes within CellMissy: dose-response analysis on cell migration and related data.		2019
30371849	LNCipedia 5: towards a reference set of human long non-coding RNAs.	Nucleic Acids Research	2019
30465426	Unipept 4.0: Functional Analysis of Metaproteome Data.	Journal of Proteome Research	2019