Publications HAL

2023/06 microLife - Analysis of a logical regulatory network reveals how Fe-S cluster biogenesis is controlled in the face of stress

2023/02 Cell Reports Methods - Inferring cell cycle phases from a partially temporal network of protein interactions

2021/12 Scientific Reports - MultiVERSE: a multiplex and multiplex-heterogeneous network embedding approach

2021/12 Scientific Reports - Introducing the novel Cytoscape app TimeNexus to analyze time-series data using temporal MultiLayer Networks (tMLNs)

2021/11 - Inferring cell cycle phases from a partially temporal network of protein interactions

2021/10 - An integrated analysis tool reveals intrinsic biases in gene set enrichment

2021/08 PLoS Computational Biology - A multi-objective genetic algorithm to find active modules in multiplex biological networks

2020/11 - A Multi-Objective Genetic Algorithm to Find Active Modules in Multiplex Biological Networks

2019/12 - Population-based meta-heuristic for active modules identification

2019/09 Nature Methods - Assessment of network module identification across complex diseases

2019/05 Antimicrobial Agents and Chemotherapy - An Integrative Database of β-Lactamase Enzymes: Sequences, Structures, Functions, and Phylogenetic Trees

2019/02 Bioinformatics - Random walk with restart on multiplex and heterogeneous biological networks

2017/07 - Prediction of Disease-associated Genes by advanced Random Walk with Restart on Multiplex and Heterogeneous Biological Networks

2017/01 Journal of Discrete Algorithms - Designing optimal-and fast-on-average pattern matching algorithms

2016/04 BMC Biology - A quantitative genome-wide RNAi screen in C. elegans for antifungal innate immunity genes

2014/11 G3 - Clone Mapper: An Online Suite of Tools for RNAi Experiments in Caenorhabditis elegans

2014/01 Worm - ICeE an interface for C. elegans experiments

2014/01 G3 - Clone Mapper: An Online Suite of Tools for RNAi Experiments in Caenorhabditis elegans

2013/01 Chaos: An Interdisciplinary Journal of Nonlinear Science - Dynamical modeling and analysis of large cellular regulatory networks

2013/01 BioSystems - Clust&See: A Cytoscape plugin for the identification, visualization and manipulation of network clusters

2012/07 - Logical modelling of cellular decision processes with GINsim

2011/10 - ModClust: a Cytoscape plugin for modularity-based clustering of networks

2011/01 PLoS ONE - A Comprehensive Analysis of Gene Expression Changes Provoked by Bacterial and Fungal Infection in C. elegans

2010/03 Mathématiques et Sciences Humaines - About the largest subtree common to several X-trees

2009/12 Bioinformatics - SimCT: a generic tool to visualize ontology-based relationships for biological objects.

2009/06 - About the largest subtree common to several phylogenetic trees

2009/06 - Dispersion sémantique dans des familles morpho-phonologiques : éléments théoriques et empiriques

2007/01 Journal of Discrete Algorithms - Local Similarity Between Quotiented Ordered Trees

2005/07 - ClusterInspector: a tool to visualize ontology-based relationships between biological entities

2004/06 - Local Similarity Between Trees

2003/01 Theoretical Computer Science - R{NA} secondary structure comparison: exact analysis of the {Z}hang-{S}hasha tree edit algorithm