Smiles2Monomers: a link between chemical and biological structures for polymers. - Yoann Dufresne; Laurent Noé; Valérie Leclère; Maude Pupin (J. Cheminformatics, 2015)

Norine, the knowledgebase dedicated to non-ribosomal peptides, is now open to crowdsourcing. - Areski Flissi; Yoann Dufresne; Juraj Michalik; Laurie Tonon; Stéphane Janot; Laurent Noé; Philippe Jacques; Valérie Leclère; Maude Pupin (Nucleic Acids Res., 2016)

Algorithmique pour l'annotation automatique de peptides non ribosomiques. (Algorithms for automatic annotation of Non Ribosomal Peptides). - Yoann Dufresne (2016)

MATAM: reconstruction of phylogenetic marker genes from short sequencing reads in metagenomes. - Pierre Pericard; Yoann Dufresne; Loïc Couderc; Samuel Blanquart; Hélène Touzet (Bioinform., 2018)

SLIM: a flexible web application for the reproducible processing of environmental DNA metabarcoding data. - Yoann Dufresne; Franck Lejzerowicz; Laure Apotheloz Perret-Gentil; Jan Pawlowski; Tristan Cordier (BMC Bioinform., 2019)

A Graph-Theoretic Barcode Ordering Model for Linked-Reads. - Yoann Dufresne; Chen Sun 014; Pierre Marijon; Dominique Lavenier; Cédric Chauve; Rayan Chikhi (WABI, 2020)

Norine: update of the nonribosomal peptide resource. - Areski Flissi; Emma Ricart; Clémentine Campart; Mickael Chevalier; Yoann Dufresne; Juraj Michalik; Philippe Jacques; Christophe Flahaut; Frédérique Lisacek; Valérie Leclère; Maude Pupin (Nucleic Acids Res., 2020)

The K-mer File Format: a standardized and compact disk representation of sets of k-mers. - Yoann Dufresne; Téo Lemane; Pierre Marijon; Pierre Peterlongo; Amatur Rahman; Marek Kokot; Paul Medvedev; Sebastian Deorowicz; Rayan Chikhi (Bioinform., 2022)

Compression algorithm for colored de Bruijn graphs. - Amatur Rahman; Yoann Dufresne; Paul Medvedev (Algorithms Mol. Biol., 2024)