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Biochemical Networks Modeling Group Pedro Mendes' group at the Virginia Bioinformatics Institute Projects | People | Publications We are interested in understanding how cells work at the biochemical level. Our approach can be labeled as Systems Biology, as we derive quantitative dynamic models from integrative functional genomic data. We have ongoing projects in development of methodologies and software for the complete process of going from functional genomic data to computational models: biochemical simulators (Gepasi and COPASI), database design (DOME and B-Net), data analysis, network inference, parameter estimation for nonlinear models, and theoretical aspects of biochemical regulation (such as Metabolic Control Analysis). We are also very involved with the analysis and modeling of a series of interesting biological problems, either through collaboration with several other groups, or in our own laboratory. Three major projects are based on the perturbation/time course approach of Systems Biology: Medicago truncatula biotic and abiotic stress, S. cerevisiea oxidative stress response, and the response of Vitis vinifera to drought, salt, and cold stress. We are also applying the same methodology to the study of breast cancer. Two other projects are bioinformatics approaches: Vitamin C biosynthesis in Arabidopsis thaliana, and a Plasmodium falciparum biochemical knowledge base. Recent topics that we have published upon are:
We are not taking up new PhD students in the group.
Created by: system last modification: Sunday 28 of October, 2007 [21:05:35 UTC] by admin |
