Publications by authors named "Arthur Declercq"

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High-Coverage Immunopeptidomics Using timsTOF Mass Spectrometers with Thunder-DDA-PASEF Boosted by MSRescore.
David Gomez-Zepeda, Julian Beyrle, Annica Preikschat, Arthur Declercq, Yannic Chen

Methods Mol Biol· October 2025

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Collisional Cross-Section Prediction for Multiconformational Peptide Ions with IM2Deep.
Robbe Devreese, Alireza Nameni, Arthur Declercq, Emmy Terryn, Ralf Gabriels

Anal Chem· July 2025

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Maximizing Immunopeptidomics-Based Bacterial Epitope Discovery by Multiple Search Engines and Rescoring.
Patrick Willems, Fabien Thery, Laura Van Moortel, Margaux De Meyer, An Staes, Arthur Declercq

J Proteome Res· April 2025

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TIMSRescore: A Data Dependent Acquisition-Parallel Accumulation and Serial Fragmentation-Optimized Data-Driven Rescoring Pipeline Based on MSRescore.
Arthur Declercq, Robbe Devreese, Jonas Scheid, Caroline Jachmann, Tim Van Den Bossche

J Proteome Res· March 2025

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MSRescore 3.0 Is a Modular, Flexible, and User-Friendly Platform to Boost Peptide Identifications, as Showcased with MS Amanda 3.0.
Louise M Buur, Arthur Declercq, Marina Strobl, Robbin Bouwmeester, Sven Degroeve

J Proteome Res· August 2024

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Bioinformatics Pipeline for Processing Single-Cell Data.
Arthur Declercq, Nina Demeulemeester, Ralf Gabriels, Robbin Bouwmeester, Sven Degroeve

Methods Mol Biol· June 2024

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Intensity and retention time prediction improves the rescoring of protein-nucleic acid cross-links.
Arslan Siraj, Robbin Bouwmeester, Arthur Declercq, Luisa Welp, Aleksandar Chernev

Proteomics· April 2024

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Thunder-DDA-PASEF enables high-coverage immunopeptidomics and is boosted by MSRescore with MSPIP timsTOF fragmentation prediction model.
David Gomez-Zepeda, Danielle Arnold-Schild, Julian Beyrle, Arthur Declercq, Ralf Gabriels

Nat Commun· March 2024

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Ionmob: a Python package for prediction of peptide collisional cross-section values.
David Teschner, David Gomez-Zepeda, Arthur Declercq, Mateusz K Łącki, Seymen Avci

Bioinformatics· September 2023

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Updated MS²PIP web server supports cutting-edge proteomics applications.
Arthur Declercq, Robbin Bouwmeester, Cristina Chiva, Eduard Sabidó, Aurélie Hirschler

Nucleic Acids Res· July 2023

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psm_utils: A High-Level Python API for Parsing and Handling Peptide-Spectrum Matches and Proteomics Search Results.
Ralf Gabriels, Arthur Declercq, Robbin Bouwmeester, Sven Degroeve, Lennart Martens

J Proteome Res· February 2023

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MSRescore: Data-Driven Rescoring Dramatically Boosts Immunopeptide Identification Rates.
Arthur Declercq, Robbin Bouwmeester, Aurélie Hirschler, Christine Carapito, Sven Degroeve

Mol Cell Proteomics· August 2022

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