The KNOTTIN website and database: a new information system dedicated to the knottin scaffold. - Jean-Christophe Gelly; Jérôme Gracy; Quentin Kaas; Dung Le-Nguyen; Annie Heitz; Laurent Chiche (Nucleic Acids Res., 2004)

EvDTree: structure-dependent substitution profiles based on decision tree classification of 3D environments. - Jean-Christophe Gelly; Laurent Chiche; Jérôme Gracy (BMC Bioinform., 2005)

'Protein Peeling': an approach for splitting a 3D protein structure into compact fragments. - Jean-Christophe Gelly; Alexandre G. de Brevern; Serge A. Hazout (Bioinform., 2006)

Protein Peeling 2: a web server to convert protein structures into series of protein units. - Jean-Christophe Gelly; Catherine Etchebest; Serge A. Hazout; Alexandre G. de Brevern (Nucleic Acids Res., 2006)

KNOTTIN: the knottin or inhibitor cystine knot scaffold in 2007. - Jérôme Gracy; Dung Le-Nguyen; Jean-Christophe Gelly; Quentin Kaas; Annie Heitz; Laurent Chiche (Nucleic Acids Res., 2008)

Protein Peeling 3D: new tools for analyzing protein structures. - Jean-Christophe Gelly; Alexandre G. de Brevern (Bioinform., 2011)

iPBA: a tool for protein structure comparison using sequence alignment strategies. - Jean-Christophe Gelly; Agnel Praveen Joseph; Narayanaswamy Srinivasan; Alexandre G. de Brevern (Nucleic Acids Res., 2011)

MitoGenesisDB: an expression data mining tool to explore spatio-temporal dynamics of mitochondrial biogenesis. - Jean-Christophe Gelly; Mickael Orgeur; Claude Jacq; Gaëlle Lelandais (Nucleic Acids Res., 2011)

PredyFlexy: flexibility and local structure prediction from sequence. - Alexandre G. de Brevern; Aurélie Bornot; Pierrick Craveur; Catherine Etchebest; Jean-Christophe Gelly (Nucleic Acids Res., 2012)

PolyprOnline: polyproline helix II and secondary structure assignment database. - Romain Chebrek; Sylvain Léonard; Alexandre G. de Brevern; Jean-Christophe Gelly (Database J. Biol. Databases Curation, 2014)

Improving protein fold recognition with hybrid profiles combining sequence and structure evolution. - Yassine Ghouzam; Guillaume Postic; Alexandre G. de Brevern; Jean-Christophe Gelly (Bioinform., 2015)

OREMPRO web server: orientation and assessment of atomistic and coarse-grained structures of membrane proteins. - Guillaume Postic; Yassine Ghouzam; Jean-Christophe Gelly (Bioinform., 2016)

TMPL: a database of experimental and theoretical transmembrane protein models positioned in the lipid bilayer. - Guillaume Postic; Yassine Ghouzam; Catherine Etchebest; Jean-Christophe Gelly (Database J. Biol. Databases Curation, 2017)

KNOTTIN: the database of inhibitor cystine knot scaffold after 10 years, toward a systematic structure modeling. - Guillaume Postic; Jérôme Gracy; Charlotte Périn; Laurent Chiche; Jean-Christophe Gelly (Nucleic Acids Res., 2018)

iPBAvizu: a PyMOL plugin for an efficient 3D protein structure superimposition approach. - Guilhem Faure; Agnel Praveen Joseph; Pierrick Craveur; Tarun J. Narwani; Narayanaswamy Srinivasan; Jean-Christophe Gelly; Joseph Rebehmed; Alexandre G. de Brevern (Source Code Biol. Medicine, 2019)

SWORD2: hierarchical analysis of protein 3D structures. - Gabriel Cretin; Tatiana Galochkina; Yann Vander Meersche; Alexandre G. de Brevern; Guillaume Postic; Jean-Christophe Gelly (Nucleic Acids Res., 2022)

Shaking the β-Bulges. - Pierrick Craveur; Tarun J. Narwani; Narayanaswamy Srinivasan; Jean-Christophe Gelly; Joseph Rebehmed; Alexandre G. de Brevern (IEEE ACM Trans. Comput. Biol. Bioinform., 2022)

Poincaré maps for visualization of large protein families. - Anna Klimovskaia Susmelj; Yani Ren; Yann Vander Meersche; Jean-Christophe Gelly; Tatiana Galochkina (Briefings Bioinform., 2023)

ICARUS: flexible protein structural alignment based on Protein Units. - Gabriel Cretin; Charlotte Périn; Nicolas Zimmermann; Tatiana Galochkina; Jean-Christophe Gelly (Bioinform., 2023)