CpGProD: identifying CpG islands associated with transcription start sites in large genomic mammalian sequences. - Loïc Ponger; Dominique Mouchiroud (Bioinform., 2002)

Striking Similarities in the Genomic Distribution of Tandemly Arrayed Genes in Arabidopsis and Rice. - Carene Rizzon; Loïc Ponger; Brandon S. Gaut (PLoS Comput. Biol., 2006)

MNHN-Tree-Tools: a toolbox for tree inference using multi-scale clustering of a set of sequences. - Thomas Haschka; Loïc Ponger; Christophe Escudé; Julien Mozziconacci (Bioinform., 2021)