UMR CNRS 5558 - LBBE "Biométrie et Biologie Évolutive" UCB Lyon 1 - Bât. Grégor Mendel 43 bd du 11 novembre 1918 69622 VILLEURBANNE cedex
- Research activities
My research interests are on the construction of genome-wide genetic regulatory networks, and especially on how (non-coding) genomic sequences direct transcriptional responses. I am therefore particularly involved in the modeling of molecular networks and in next-gen sequencing techniques, as a means to gather sufficient data for developing predictive models of transcription.
On the methodological side, I am mainly interested in combinatorial optimization, either with mathematical programming methods (linear or Lagrangian relasation) or using SAT and Answer Set Programming solvers. More recently I started working on parameter inference for dynamical systems, mainly ODEs.
More information and preprints can be found on my personal webpage.
Current projects:
participation to the MetaGenoReg project, with Daniel Kahn and Matteo Brilli, aiming at building an ODE model of the central carbon metabolism in E. coli. web application for the estimation of Species Sensitivity Distribution (SSD) with Sandrine Charles and Marie-Laure Delignette-Muller. nextgen sequencing data analysis as a member of the PRABI.
- Software
I do most of my developments in OCaml, which is a strongly-typed functional language developped at INRIA. I actively contribute to the Biocaml library developped by Ashish Agarwal and Sébastien Mondet.
