Combinatorics of chromosomal rearrangements based on synteny blocks and synteny packs. - Guénola Drillon; Alessandra Carbone; Gilles Fischer (J. Log. Comput., 2013)

Filling annotation gaps in yeast genomes using genome-wide contact maps. - Hervé Marie-Nelly; Martial Marbouty; Axel Cournac; Gianni Liti; Gilles Fischer; Christophe Zimmer; Romain Koszul (Bioinform., 2014)

Ulysses: accurate detection of low-frequency structural variations in large insert-size sequencing libraries. - Alexandre Gillet-Markowska; Hugues Richard; Gilles Fischer; Ingrid Lafontaine (Bioinform., 2015)

MUM&Co: accurate detection of all SV types through whole-genome alignment. - Samuel O'donnell; Gilles Fischer (Bioinform., 2020)