Workflow4Metabolomics: a collaborative research infrastructure for computational metabolomics. - Franck Giacomoni; Gildas Le Corguillé; Misharl Monsoor; Marion Landi; Pierre Pericard; Mélanie Pétéra; Christophe Duperier; Marie Tremblay-Franco; Jean-François Martin; Daniel Jacob; Sophie Goulitquer; Etienne A. Thévenot; et al. (Bioinform., 2015)

proFIA: a data preprocessing workflow for flow injection analysis coupled to high-resolution mass spectrometry. - Alexis Delabrière; Ulli M. Hohenester; Benoit Colsch; Christophe Junot; François Fenaille; Etienne A. Thévenot (Bioinform., 2017)

The future of metabolomics in ELIXIR. - Merlijn N. van Rijswijk; Charlie Beirnaert; Christophe Caron; Marta Cascante; Victoria Dominguez Del Angel; Warwick B. Dunn; Timothy M. D. Ebbels; Franck Giacomoni; Alejandra N. González-Beltrán; Thomas Hankemeier; Kenneth Haug; Jose L. Izquierdo-García; et al. (F1000Research, 2017)

Interoperable and scalable data analysis with microservices: applications in metabolomics. - Payam Emami Khoonsari; Pablo A. Moreno; Sven Bergmann; Joachim Burman; Marco Capuccini; Matteo Carone; Marta Cascante; Pedro de Atauri; Carles Foguet; Alejandra N. González-Beltrán; Thomas Hankemeier; Kenneth Haug; et al. (Bioinform., 2019)

ptairMS: real-time processing and analysis of PTR-TOF-MS data for biomarker discovery in exhaled breath. - Camille Roquencourt; Stanislas Grassin-Delyle; Etienne A. Thévenot (Bioinform., 2022)

Non-Negative Matrix Factorization of SWATH DIA Data Improves Global Metabolite Identification. - Diana Karaki; Sylvain Dechaumet; Annelaure Damont; Benoit Colsch; François Fenaille; Antoine Souloumiac; Etienne A. Thévenot (EUSIPCO, 2024)

mineMS2: annotation of spectral libraries with exact fragmentation patterns. - Alexis Delabrière; Coline Gianfrotta; Sylvain Dechaumet; Annelaure Damont; Thaïs Hautbergue; Pierrick Roger; Emilien L. Jamin; Olivier Puel; Christophe Junot; François Fenaille; Etienne A. Thévenot (J. Cheminformatics, 2025)