Computational Genomics Research Program

Program responsible: Julio Collado-Vides, Ph.D.

Who we are?

This Program has provided the bioinformatic expertise necessary for the development of genomics in this Center, both in terms of research projects (i.e. the database, annotation and comparative analyses of the R.etli genome sequence) as well as education The lab has played a major role recently in supporting teaching of several courses of our undergraduate program in genomics (math, computer science and bioinformatics). The Information Technology Management of the Center and the Mexican EMBNET Node of bioinformatics are the responsibility of this Program.

The present and the future

Based on the continuous curation of the currently best characterized regulatory network of a living cell, that of E.coli K-12 (found both in RegulonDB and in EcoCyc databases), research in the lab is centered in the computational design, genomic prediction, and comparative and evolutionary analyses of regulation of gene expression in bacteria. We have implemented bioinformatic predictive methods on gene regulation -i.e. transcription factors, upstream regions, promoters, operons-, and functionally associated genes. We have analyzed and proposed discrete models of the network comparing them with microarray expression data, redefined global regulators, analyzed the network topology and contributed with novel biological integrative analyses of gene regulation, metabolism and sensing. We plan in the future to enrich such studies with experimental approaches aiming at a systems biology oriented research.

Developed tools: