Cell fate determination depends in part on the establishment of specific transcriptional programs of gene expression. These programs result from the interpretation of the genomic cis-regulatory information by sequence-specific factors. Decoding this information in sequenced genomes is an important issue. In collaboration with H. Rouault, M. Santolini and V. Hakim (Physics, Dept., ENS, Paris), we have developed statistical analysis tools to computationally identify and predict the cis-regulatory elements that control gene expression in a set of co-regulated genes. This method, named Imogene, was applied to specific gene expression program in flies and mammals. Imogene was implemented with a web-based interface. Imogene can be used to successfully predict cis-regulatory elements within the genome of insects (fly) and mammals (mouse/human).
To use Imogene, go to http://mobyle.pasteur.fr/cgi-bin/portal.py#forms::imogene
H. Rouault, K. Mazouni, L. Couturier, V. Hakim and F. Schweisguth (2010) Genome-wide identification of cis-regulatory motifs and modules underlying gene coregulation using statistics and phylogeny. Proc. Nat. Acad. Sci. USA , 107, 14615-20
H. Rouault, M. Santolini, F. Schweisguth and V. Hakim (2014) Imogene: identification of motifs and cis-regulatory modules underlying gene co-regulation. Nucleic Acid Research, 42, 6128-45