Spatial Information and Boolean Genetic Regulatory Networks. - Matthieu Manceny; Marc Aiguier; Pascale Le Gall; Joan Hérisson; Ivan Junier; François Képès (BICoB, 2009)

Periodic pattern detection in sparse boolean sequences. - Ivan Junier; Joan Hérisson; François Képès (Algorithms Mol. Biol., 2010)

Spatial and Topological Organization of DNA Chains Induced by Gene Co-localization. - Ivan Junier; Olivier C. Martin; François Képès (PLoS Comput. Biol., 2010)

Boosting Binding Sites Prediction Using Gene's Positions. - Mohamed Elati; Rim Fekih; Rémy Nicolle; Ivan Junier; Joan Hérisson; François Képès (WABI, 2011)

Stable Community Cores in Complex Networks. - Massoud Seifi; Ivan Junier; Jean-Baptiste Rouquier; Svilen Iskrov; Jean-Loup Guillaume (CompleNet, 2012)

Parallel stepwise stochastic simulation: harnessing GPUs to explore possible futures states of a chromosome folding model thanks to the possible futures algorithm (PFA). - Jonathan Passerat-Palmbach; Jonathan Caux; Yannick Le Pennec; Romain Reuillon; Ivan Junier; François Képès; David R. C. Hill (SIGSIM-PADS, 2013)

Conserved patterns in bacterial genomes: A conundrum physically tailored by evolutionary tinkering. - Ivan Junier (Comput. Biol. Chem., 2014)

Vers un bricolage rationalisé des génomes bactériens. (Rationalizing the Tinkering of Bacterial Genomes). - Ivan Junier (2021)

Supercoiled DNA and non-equilibrium formation of protein complexes: A quantitative model of the nucleoprotein ParBS partition complex. - Jean-Charles Walter; Thibaut Lepage; Jérôme Dorignac; Frédéric Geniet; Andrea Parmeggiani; John Palmeri; Jean-Yves Bouet; Ivan Junier (PLoS Comput. Biol., 2021)