The Computational Bioscience Program of the University of Colorado School of Medicine
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Associated Faculty

Our Associated Faculty often join us in order to serve as a member of a student’s thesis committee. They must have a strong interest in computational biology, participate in program activities and present a lecture to the core faculty. These appointments are time–limited and must be renewed every three years.

Asa Ben-Hur
Computer Science
Home Page:
Research Areas: My lab specializes in applications of machine learning in bioinformatics. We are developing methods for predicting protein function and interactions, and are studying the process of alternative splicing in plants.

Min Choi, Ph.D.
Computer Science
Home Page:
Research Areas: Professor Choi’s research interests are in computer graphics, scientific visualization and human–computer interaction, with an emphasis on physically–based modeling and simulation for medical and bioinformatics applications.

Subhajyoti (Subho) De, Ph.D.
Biomedical Informatics and Personalized Medicine
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Research Areas: Development and application of bioinformatics methods for analyzing genomics, epigenomcs and transcriptomic data. Genetic and epigenetic abnormalities incancer and pre-malignant conditions.
PubMed Publications

Douglas Everett, Ph.D. (Curran-Everett for publications)
Preventive Medicine & Biometrics
Email: EverettD@NJC.ORG
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Research Areas: Professor Everett’s research interests are in the promoting of the proper use of statistics among scientists and clinicians, including the statistics of multiple testing.

Katheleen Gardiner, Ph.D



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Research Areas:  Professor Gardiner's laboratory focuses on the molecular basis of the cognitive deficits seen in Down syndrome. Down syndrome (Trisomy 21) is the most common cause of intellectual disability, and is due to an extra copy of human chromosome 21 and the increased expression of some number of the ~500 genes encoded by it.

Mark Geraci, M.D.
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Research Areas: Professor Geraci is the Director of the Gene Expression Center, and the Division Chief of Pulmonary and Critical Care Medicine. His research interests are in the role of eicosanoids and pulmonary hypertension and lung cancer, and in the use of gene expression analysis to study disease pathogenesis.
Ryan Gill, Ph.D.
Chemical & Biological Engineering
Email: RTG@Colorado.EDU
Home Page:
Research Areas: Professor Gill’s research interests are in new tools and theories to study the evolution of microbial genomes, focusing particularly on the evolution of stress tolerance behaviors in E.coli.

Barbara Grimpe, Ph.D.
Home Page: Dr. Grimpe Home Page
Research Areas: Each year approximately 100,000 individuals worldwide endure a spinal cord injury (SCI). In spite of centuries of research no satisfying treatment is available for this disease. This is mainly due to complex systems behavior, which makes it difficult for scientists to comprehend the entire processes. My group has set its dedication to develop new therapeutics via the utilization of a knock down technology called deoxyribozyme to reduce proteins, which are inhibitory to axonal growth. To identify these suitable molecules, so called “key player” my laboratory has additionally developed a prototypic computer program suite. This program provides an overall picture of SCI, its underlying biochemical pathways, potential protein interactions and lays hand on the sheer number of applied substances. Together these two approaches hold promise to find a treatment for paralysis.

Joan Hooper, Ph.D.
Cell and Developmental Biology
Home Page: Dr. Hooper Home Page
Research Areas: Cell determination, developmental patterning and hedgehog signaling in Drosophila.

David Kao, M.D.
Home Page: Dr. Kao Home Page
Research Areas: Translational bioinformatics, Personalization of progonsis and treatment plan, Heart failure/cardiomyopathy, Integration of public data resources,

Norman Pace, Ph.D.
Molecular, Cellular & Developmental Biology
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Research Areas: Professor Pace’s research interests involve the synthesis, structure and function of RNA; and the application of molecular biological tools to problems in environmental microbiology.

Stephanie Santorico, Ph.D.
Mathematical and Statistical Sciences
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Research Areas: Professor Santorico’s research interests are in Statistical Genetics, Genetic Epidemiology, Genetics of Gene Expression, Integrating Genomics Data to Understand Complex Human Traits including Methods involving Genetic Linkage and Linkage Disequilibrium.

James Sikela, Ph.D.
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Research Areas: Professor Sikela’s research interests are in the development and application of advanced genome technologies, particularly as they apply to understanding of human evolution and human disease.
Vic Spitzer, Ph.D.
Cellular & Structural Biology
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Professor Spitzer is the director of the Center for Human Simulation and one of the principal architects of the Visible Human Project.

Richard Spritz, M.D.
Human Medical Genetics and Genomics
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Professor Spritz is the director of the Human Medical Genetics Program. The Human Medical Genetics Program at the University of Colorado at Denver and Health Sciences Center is a relatively new, interdisciplinary Ph.D. program designed to provide research training in the rapidly developing area of human genetics, especially as it regards medical aspects of the discipline.

Scott Walmsley, Ph.D.
Biomedical Sciences Division
Research Areas: My research interests are in developing computational methods for metabolomics and proteomics by better utilizing the chemico-physical characteristics of ions as detected in mass spectrometry thus improving the identification of metabolites, peptides and lipids.

Nicholas D. Walter, Ph.D.
Division of Pulmonary Sciences & Critical Care Medicine
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Research Areas:
The explosion in genomic technology over the past decade has thus far not resulted in concrete applications for global public health problems.  Genomically-informed epidemiologists are needed to design and implement clinically- and epidemiologically-relevant human studies.  My clinical expertise in tuberculosis and experience through years of designing and conducting epidemiologic studies in the developing world enabled me to rapidly establish multi-national, multi-center cohort studies which are collecting specimens for expression profiling. I am refining skills in study design and biostatistics through a PhD in Epidemiology.  Applying genomic tools to gain insight into the epidemiology of tuberculosis demands multi-disciplinary collaboration.  I have help to assemble a team of leading experts in genomics, systems biology, immunology, and study design.  My background and training in combination with my expert collaborators and strong institutional support will enable us to make important contributions to the genomic epidemiology of tuberculosis.
Trevor Williams, Ph.D.
Cell and Developmental Biology
Home Page:
Research Areas: Craniofacial development.

Karin Verspoor, Ph.D.

NICTA Victoria Research Laboratory, University of Melbourne - Australia


Home Page: Dr. Verspoor Home Page

Research Areas:  Development of algorithms for natural language processing of biomedical texts, text mining and information extraction methods combining symbolic and statistical representations of linguistic features and biological knowledge.

Thomas Yeh, Ph.D.
Computer Science
Home Page:
Research Areas: Research and teach HCI issues with societal impacts. Promote emergent literacy for blind children using 3D printing. Study Android apps using Big Data. Automate GUIs using computer vision.

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