Metavir: a web server dedicated to virome analysis. - Simon Roux; Michaël Faubladier; Antoine Mahul; Nils Paulhe; Aurélien Bernard; Didier Debroas; François Enault (Bioinform., 2011)

Metavir 2: new tools for viral metagenome comparison and assembled virome analysis. - Simon Roux; Jeremy Tournayre; Antoine Mahul; Didier Debroas; François Enault (BMC Bioinform., 2014)

IMG/VR v.2.0: an integrated data management and analysis system for cultivated and environmental viral genomes. - David Páez-Espino; Simon Roux; I-Min A. Chen; Krishna Palaniappan; Anna Ratner; Ken Chu; Marcel Huntemann; T. B. K. Reddy; Joan Carles Pons; Mercè Llabrés; Emiley A. Eloe-Fadrosh; Natalia N. Ivanova; et al. (Nucleic Acids Res., 2019)

The IMG/M data management and analysis system v.6.0: new tools and advanced capabilities. - I-Min A. Chen; Ken Chu; Krishnaveni Palaniappan; Anna Ratner; Jinghua Huang; Marcel Huntemann; Patrick Hajek; Stephan Ritter; Neha Varghese; Rekha Seshadri; Simon Roux; Tanja Woyke; et al. (Nucleic Acids Res., 2021)

IMG/VR v3: an integrated ecological and evolutionary framework for interrogating genomes of uncultivated viruses. - Simon Roux; David Páez-Espino; I-Min A. Chen; Krishna Palaniappan; Anna Ratner; Ken Chu; T. B. K. Reddy; Stephen Nayfach; Frederik Schulz; Lee Call; Russell Y. Neches; Tanja Woyke; et al. (Nucleic Acids Res., 2021)

efam: an expanded, metaproteome-supported HMM profile database of viral protein families. - Ahmed A. Zayed; Dominik Lücking; Mohamed Mohssen; Dylan Cronin; Ben Bolduc; Ann C. Gregory; Katherine R. Hargreaves; Paul D. Piehowski; Richard Allen White III; Eric L. Huang; Joshua N. Adkins; Simon Roux; et al. (Bioinform., 2021)

IMG/VR v4: an expanded database of uncultivated virus genomes within a framework of extensive functional, taxonomic, and ecological metadata. - Antonio Pedro Camargo; Stephen Nayfach; I-Min A. Chen; Krishnaveni Palaniappan; Anna Ratner; Ken Chu; Stephan Ritter; T. B. K. Reddy; Supratim Mukherjee; Frederik Schulz; Lee Call; Russell Y. Neches; et al. (Nucleic Acids Res., 2023)

The IMG/M data management and analysis system v.7: content updates and new features. - I-Min A. Chen; Ken Chu; Krishnaveni Palaniappan; Anna Ratner; Jinghua Huang; Marcel Huntemann; Patrick Hajek; Stephan Ritter; Cody Webb; Dongying Wu; Neha Varghese; T. B. K. Reddy; et al. (Nucleic Acids Res., 2023)

The OMG dataset: An Open MetaGenomic corpus for mixed-modality genomic language modeling. - Andre Cornman; Jacob West-Roberts; Antonio Pedro Camargo; Simon Roux; Martin Beracochea; Milot Mirdita; Sergey Ovchinnikov; Yunha Hwang (ICLR, 2025)

A cost and community perspective on the barriers to microbiome data reuse. - Julia Kelliher; Leah Y. D. Johnson; Francisca E. Rodriguez; Jaclyn K. Saunders; Marie E. Kroeger; Buck Hanson; Aaron J. Robinson; Winston E. Anthony; Marc W. Van Goethem; Anders Kiledal; Ahmed A. Shibl; Amanda Araujo Serrao de Andrade; et al. (Frontiers Bioinform., 2025)