Faculty in Genomics and Computational Biology

Zaid Abdo

Associate Professor (Microbiology, Immunology, and Pathology) Ph.D. University of Idaho 2005. We collect the genetic data from microbial communities of viruses, bacteria, fungi, and other organisms within a host or an environment. We also create the algorithms and computational tools to match them against databases and analyze the results. Our goal is to understand the nature, composition, and function of these communities.

Cris Argueso

Cris Argueso

Assistant Professor (Bioagricultural Sciences & Pest Management); Ph.D. Cornell University 2004. The work in my laboratory focuses on unraveling the molecular mechanisms by which plant hormones regulate plant immunity and plant growth in the context of environmental change. We use a systems biology approach to integrate genetics and transcriptomics data to identify gene networks that regulate plant adaptation to both biotic and abiotic stresses.

Colorado State University

Lucas Argueso
Assistant Professor (Environmental & Radiology Health Sciences); Ph.D. Cornell 2004. Molecular mechanisms involved in the formation of gene Copy Number Variation (CNV) and other chromosomal rearrangements. Genomics of industrial yeast strains used in biofuels production.

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Tai Montgomery
Assistant Professor (Biology); Ph.D. Small non-coding RNAs and their roles in heterochromatin formation, transcriptional elongation, translation of mRNAs, and sorting of RNAs within a cell.

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Rachel Mueller
Associate Faculty (Biology); Ph.D. University of California, Berkeley. Focus on the nuclear and mitochondrial genomes of salamanders, both of which are greatly expanded relative to other vertebrate species. Our research combines genomic sequence data, simulations, natural history collections, and fieldwork to answer diverse questions in genome evolution and phylogenetics.

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Erin Nishimura

Assistant Professor (Genomics, Gene Expression, Reproduction and Development). Ph.D. University of California, Berkeley 2010. Using hand dissection coupled with low-input RNA-seq, we have generated cell-specific transcriptome profiles in early embryonic stages of the nematode worm, C. elegans. To link these genome-wide assays to specific developmental fates, we rely on the determinant property of C. elegans development. C. elegans embryos produce an invariant number of cells that divide with highly reproducible timing and certain fate allowing us to link embryonic cells in early stages to their eventual fates.

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Ashok Prasad
Assistant Professor (Chemical and Biological Engineering and School of Biomedical Engineering); Ph.D. Brandeis University, 2006. Mathematical and computational modeling of signal transduction and gene transcription, stochastic processes in biology, properties and dynamics of the cytoskeleton of mammalian cells, cancer drug sensitivity and resistance, modeling for synthetic biology applications in plants and single cells, genome-scale metabolic modeling of e. coli, cyanobacteria and algae.

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Anireddy S.N. Reddy
Professor (Biology); Ph.D. Jawaharlal Nehru 1984. Signal transduction mechanisms; regulation of gene expression; crop improvement by genetic engineering.

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Dan Sloan
Assistant Professor (Biology); Ph.D., University of Virginia. A combination of wet-lab and computation approaches to understand the evolutionary forces that shape cyto-nuclear interactions at the genome level.

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Christopher Snow
Assistant Professor (Chemical and Biological Engineering); Ph.D. Stanford University, 2006. Focus on the prediction and design of biomolecular structure and specificity. Application areas of interest include bioenergy, synthetic biology, pharmacogenetics, and structural biology. Methods of particular interest include directed evolution, macromolecular crystallography, and new algorithms for reliable computational protein engineering.

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Mark D. Stenglein
Assistant Professor (Microbiology, Immunology & Pathology); Ph.D. University of Minnesota. Virology. Computational Biology. Bioinformatics. Genomics. Virus discovery, Virus evolution.

Stewart-Jane-260X325Jane Stewart
Assistant Professor (Plant Pathology); Ph.D. Washington State University 2011. My research interests include: understanding the biology, ecology and genetics of emerging tree/plant pathogenic fungi using population genetics and genomic methods, studying the interactions of plant and fungi that govern variation in host specialization, pathogenicity, and virulence, and understanding genomic drivers of fungal species delimitation and divergence with a focus on pathogens important to Colorado’s forests, shade and fruit trees, and forests worldwide.