SAT, a flexible and optimized Web application for SSR marker development. - Alexis Dereeper; Xavier Argout; Claire Billot; Jean-François Rami; Manuel Ruiz (BMC Bioinform., 2007)

Phylogeny.fr: robust phylogenetic analysis for the non-specialist. - Alexis Dereeper; Valentin Guignon; Guillaume Blanc; Stéphane Audic; S. Buffet; François Chevenet; Jean-François Dufayard; Stéphane Guindon; Vincent Lefort; Magali Lescot; Jean-Michel Claverie; Olivier Gascuel (Nucleic Acids Res., 2008)

SNiPlay: a web-based tool for detection, management and analysis of SNPs. Application to grapevine diversity projects. - Alexis Dereeper; Stéphane Nicolas; Loic Le Cunff; Roberto Bacilieri; Agnes Doligez; Jean-Pierre Peros; Manuel Ruiz; Patrice This (BMC Bioinform., 2011)

The Banana Genome Hub. - Gaëtan Droc; Delphine Larivière; Valentin Guignon; Nabila Yahiaoui; Dominique This; Olivier Garsmeur; Alexis Dereeper; Chantal Hamelin; Xavier Argout; Jean-François Dufayard; Juliette Lengelle; Franc-Christophe Baurens; et al. (Database J. Biol. Databases Curation, 2013)

The coffee genome hub: a resource for coffee genomes. - Alexis Dereeper; Stéphanie Bocs; Mathieu Rouard; Valentin Guignon; Sébastien Ravel; Christine Tranchant-Dubreuil; Valérie Poncet; Olivier Garsmeur; Philippe Lashermes; Gaëtan Droc (Nucleic Acids Res., 2015)

SNiPlay3: a web-based application for exploration and large scale analyses of genomic variations. - Alexis Dereeper; Felix Homa; Gwendoline Andres; Guilhem Sempéré; Gautier Sarah; Yann Hueber; Jean-François Dufayard; Manuel Ruiz (Nucleic Acids Res., 2015)

PanExplorer: a web-based tool for exploratory analysis and visualization of bacterial pan-genomes. - Alexis Dereeper; Marilyne Summo; Damien F. Meyer (Bioinform., 2022)

getSequenceInfo: a suite of tools allowing to get genome sequence information from public repositories. - Vincent Moco; Damien Cazenave; Maëlle Garnier; Matthieu Pot; Isabel Marcelino; Antoine Talarmin; Stéphanie Guyomard-Rabenirina; Sébastien Breurec; Séverine Ferdinand; Alexis Dereeper; Yann Reynaud; David Couvin (BMC Bioinform., 2022)