Semantic distillation: a method for clustering objects by their contextual specificity - Thomas Sierocinski; Antony Le Béchec; Nathalie Théret; Dimitri Petritis (CoRR, 2007)

Semantic Distillation: A Method for Clustering Objects by their Contextual Specificity. - Thomas Sierocinski; Antony Le Béchec; Nathalie Théret; Dimitri Petritis (NICSO, 2007)

M@IA: A Modular Open-Source Application for Microarray Workflow and Integrative Datamining. - Antony Le Béchec; Pierre-Joachim Zindy; Thomas Sierocinski; Dimitri Petritis; Audrey Bihouée; Nolwenn LeMeur; Jean Léger; Nathalie Théret (Silico Biol., 2008)

Simple Shared Motifs (SSM) in conserved region of promoters: a new approach to identify co-regulation patterns. - Jeremy Gruel; Michel Le Borgne; Nolwenn LeMeur; Nathalie Théret (BMC Bioinform., 2011)

An integrative modeling framework reveals plasticity of TGF-β signaling. - Geoffroy Andrieux; Michel Le Borgne; Nathalie Théret (BMC Syst. Biol., 2014)

Preface. - Loïc Paulevé; Nathalie Théret (SASB, 2015)

Geometric analysis of pathways dynamics: Application to versatility of TGF-β receptors. - Satya Swarup Samal; Aurélien Naldi; Dima Grigoriev; Andreas Weber 004; Nathalie Théret; Ovidiu Radulescu (Biosyst., 2016)

In silico characterization of the interaction between LSKL peptide, a LAP-TGF-beta derived peptide, and ADAMTS1. - Marie-Amandine Laurent; Dominique Bonnier; Nathalie Théret; Pierre Tufféry; Gautier Moroy (Comput. Biol. Chem., 2016)

Identifying Functional Families of Trajectories in Biological Pathways by Soft Clustering: Application to TGF-β Signaling. - Jean Coquet; Nathalie Théret; Vincent Legagneux; Olivier Dameron (CMSB, 2017)

KaSa: A Static Analyzer for Kappa. - Pierre Boutillier; Ferdinanda Camporesi; Jean Coquet; Jérôme Feret; Kim Quyên Lý; Nathalie Théret; Pierre Vignet (CMSB, 2018)

A pipeline to create predictive functional networks: application to the tumor progression of hepatocellular carcinoma. - Maxime Folschette; Vincent Legagneux; Arnaud Poret; Lokmane Chebouba; Carito Guziolowski; Nathalie Théret (BMC Bioinform., 2020)

Constructing xenobiotic maps of metabolism to predict enzymes catalyzing metabolites capable of binding to DNA. - Maël Conan; Nathalie Théret; Sophie Langouet; Anne Siegel (BMC Bioinform., 2021)

Discrete modeling for integration and analysis of large-scale signaling networks. - Pierre Vignet; Jean Coquet; Sébastien Auber; Matéo Boudet; Anne Siegel; Nathalie Théret (PLoS Comput. Biol., 2022)

Phylogenetic inference of the emergence of sequence modules and protein-protein interactions in the ADAMTS-TSL family. - Olivier Dennler; François Coste; Samuel Blanquart; Catherine Belleannée; Nathalie Théret (PLoS Comput. Biol., 2023)

A rule-based multiscale model of hepatic stellate cell plasticity: Critical role of the inactivation loop in fibrosis progression. - Matthieu Bouguéon; Vincent Legagneux; Octave Hazard; Jérémy Bomo; Anne Siegel; Jérôme Feret; Nathalie Théret (PLoS Comput. Biol., 2024)