Our research relies on strong collaborations with life scientists, mathematicians, biophysicists, and computer scientists. I co-direct the ICTAS Center for Systems Biology of Engineered Tissues. I am the associate director of the Computational Tissue Engineering interdisciplinary graduate education program. I am also a member of MENGO, a Microbial ENergy processes Gene Ontology project.

Active Collaborators
Richard Helm Department of Biochemistry, Virginia Tech Signaling pathways in bioengineered tissues Shiv D. Kale Biocomplexity Institute, Virginia Tech PathLinker, GraphSpace John Kececiouglu Department of Computer Science, University of Arizona Signaling hypergraphs Simon Kasif Department of Biomedical Engineering, Boston University Gene function prediction (GAIN, Art, TE and Systems Biology) Kurt Luther Department of Computer Science, Virginia Tech Crowdsourcing of network layouts, GraphSpace Jean Peccoud Dept. of Chemical and Biological Engineering, Colorado State University Combining top-down and bottom-up models in systems biology (Model validation, GraphSpace) Padma Rajagopalan Department of Chemical Engineering, Virginia Tech Systems biology of engineered 3-D cellular architectures (CS vs HM, CBPLNs, TE and Systems Biology, 3-cell liver mimics) John Tyson Department of Biological Sciences, Virginia Tech Combining top-down and bottom-up models in systems biology (LINKER, START to FINISH, Model validation, GraphSpace)

Other Collaborators
Hans Bohnert Department of Plant Biology, UIUC Plant stress response (CO2) Ruth Grene Department of Plant Pathology, Virginia Tech Plant stress response (XcisClique, CO2) Lenwood Heath Department of Computer Science, Virginia Tech Plant stress response (XcisClique, CO2) Michael G. Katze Department of Microbiology, University of Washington HIV dependency factors Alexey Onufriev Department of Computer Science, Virginia Tech Ligand diffusion pathways in proteins (myoglobin) Naren Ramakrishnan Department of Computer Science, Virginia Tech Compositional data mining (CDM), Pursuit of truthiness Bruno Sobral Virginia Bioinformatics Institute, Virginia Tech Host-pathogen protein interaction networks (prediction, landscape, PIG, bacterial-human, human-HIV) Brett Tyler Virginia Bioinformatics Institute, Virginia Tech Gene function prediction (HDFs), pathway analysis (perturbation)