FAF-Drugs: free ADME/tox filtering of compound collections. - Maria A. Miteva; Stephanie Violas; Matthieu Montès; David Gomez; Pierre Tufféry; Bruno O. Villoutreix (Nucleic Acids Res., 2006)

Receptor-Based Virtual Ligand Screening for the Identification of Novel CDC25 Phosphatase Inhibitors. - Matthieu Montès; Emmanuelle Braud; Maria A. Miteva; Mary-Lorène Goddard; Odile Mondésert; Stéphanie Kolb; Marie-Priscille Brun; Bernard Ducommun; Christiane Garbay; Bruno O. Villoutreix (J. Chem. Inf. Model., 2008)

Comparative Evaluation of 3D Virtual Ligand Screening Methods: Impact of the Molecular Alignment on Enrichment. - David Giganti; Hélène Guillemain; Jean-Louis Spadoni; Michael Nilges; Jean-François Zagury; Matthieu Montès (J. Chem. Inf. Model., 2010)

Multiple Structures for Virtual Ligand Screening: Defining Binding Site Properties-Based Criteria to Optimize the Selection of the Query. - Nesrine Ben Nasr; Hélène Guillemain; Nathalie Lagarde; Jean-François Zagury; Matthieu Montès (J. Chem. Inf. Model., 2013)

Importance of the Pharmacological Profile of the Bound Ligand in Enrichment on Nuclear Receptors: Toward the Use of Experimentally Validated Decoy Ligands. - Nathalie Lagarde; Jean-François Zagury; Matthieu Montès (J. Chem. Inf. Model., 2014)

Predictiveness curves in virtual screening. - Charly Empereur-mot; Hélène Guillemain; Aurélien Latouche; Jean-François Zagury; Vivian Viallon; Matthieu Montès (J. Cheminformatics, 2015)

Benchmarking Data Sets for the Evaluation of Virtual Ligand Screening Methods: Review and Perspectives. - Nathalie Lagarde; Jean-François Zagury; Matthieu Montès (J. Chem. Inf. Model., 2015)

Discriminating agonist and antagonist ligands of the nuclear receptors using 3D-pharmacophores. - Nathalie Lagarde; Solenne Delahaye; Jean-François Zagury; Matthieu Montès (J. Cheminformatics, 2016)

Screening Explorer-An Interactive Tool for the Analysis of Screening Results. - Charly Empereur-mot; Jean-François Zagury; Matthieu Montès (J. Chem. Inf. Model., 2016)

Shape Similarity System driven by Digital Elevation Models for Non-rigid Shape Retrieval. - Daniela Craciun; Guillaume Levieux; Matthieu Montès (3DOR@Eurographics, 2017)

Protein Shape Retrieval. - Na Song; Daniela Craciun; Charles Christoffer; Xusi Han; Daisuke Kihara; Guillaume Levieux; Matthieu Montès; Hong Qin 001; Pranjal Sahu; Genki Terashi; Haiguang Liu (3DOR@Eurographics, 2017)

Protein Shape Retrieval. - Florent Langenfeld; Apostolos Axenopoulos; Anargyros Chatzitofis; Daniela Craciun; Petros Daras; Bowen Du; Andrea Giachetti 001; Yu-Kun Lai; Haisheng Li 002; Yingbin Li; Majid Masoumi; Yuxu Peng; et al. (3DOR@Eurographics, 2018)

Immersive sonification of protein surface. - Tifanie Bouchara; Valère Raigneau; Matthieu Montès (IHM, 2018)

Predicting the affinity of Farnesoid X Receptor ligands through a hierarchical ranking protocol: a D3R Grand Challenge 2 case study. - Manon Réau; Florent Langenfeld; Jean-François Zagury; Matthieu Montès (J. Comput. Aided Mol. Des., 2018)

Protein Shape Retrieval Contest. - Florent Langenfeld; Apostolos Axenopoulos; Halim Benhabiles; Petros Daras; Andrea Giachetti 001; Xusi Han; Karim Hammoudi; Daisuke Kihara; Tuan Manh Lai; Haiguang Liu; Mahmoud Melkemi; Stelios K. Mylonas; et al. (3DOR@Eurographics, 2019)

Immersive sonification of protein surface. - Tifanie Bouchara; Matthieu Montès (VR Workshops, 2020)

SHREC 2020: Multi-domain protein shape retrieval challenge. - Florent Langenfeld; Yuxu Peng; Yu-Kun Lai; Paul L. Rosin; Tunde Aderinwale; Genki Terashi; Charles Christoffer; Daisuke Kihara; Halim Benhabiles; Karim Hammoudi; Adnane Cabani; Féryal Windal; et al. (Comput. Graph., 2020)

SHREC 2021: Surface-based Protein Domains Retrieval. - Florent Langenfeld; Tunde Aderinwale; Charles Christoffer; Woong-Hee Shin; Genki Terashi; Xiao Wang 004; Daisuke Kihara; Halim Benhabiles; Karim Hammoudi; Adnane Cabani; Féryal Windal; Mahmoud Melkemi; et al. (3DOR, 2021)

Comparative evaluation of shape retrieval methods on macromolecular surfaces: an application of computer vision methods in structural bioinformatics. - Mohamed Machat; Florent Langenfeld; Daniela Craciun; Léa Sirugue; Taoufik Labib; Nathalie Lagarde; Maxime Maria; Matthieu Montès (Bioinform., 2021)

Automatic Molecular Tour Creation: a Study. - Vincent Larroque; Maxime Maria; Stéphane Mérillou; Matthieu Montès (Eurographics (Posters), 2023)

UDock2: interactive real-time multi-body protein-protein docking software. - Cyprien Plateau-Holleville; Simon Guionnière; Benjamin Boyer; Brian Jiménez-García; Guillaume Levieux; Stéphane Mérillou; Maxime Maria; Matthieu Montès (Bioinform., 2023)

SHREC2024: Non-rigid Complementary Shapes Retrieval in Protein-protein Interactions. - Taher Yacoub; Nika Zarubina; Camille Depenveiller; Hoang-Phuc Nguyen; Vinh-Toan Vong; Minh-Triet Tran; Yuki Kagaya; Tsukasa Nakamura; Daisuke Kihara; Florent Langenfeld; Matthieu Montès (3DOR (Short Papers), 2024)

Viewpoint Selection for Molecular Visualization: Analysis and Applications. - Vincent Larroque; Maxime Maria; Stéphane Mérillou; Matthieu Montès (VISIGRAPP (1): GRAPP, HUCAPP, IVAPP, 2024)

VTX: Real-time high-performance molecular structure and dynamics visualization software. - Maxime Maria; Simon Guionnière; Nicolas Dacquay; Cyprien Plateau-Holleville; Valentin Guillaume; Vincent Larroque; Jean Lardé; Yassine Naimi; Jean-Philip Piquemal; Guillaume Levieux; Nathalie Lagarde; Stéphane Mérillou; et al. (CoRR, 2025)

Efficient GPU Computation of Large Protein Solvent-Excluded Surface. - Cyprien Plateau-Holleville; Maxime Maria; Stéphane Mérillou; Matthieu Montès (IEEE Trans. Vis. Comput. Graph., 2025)