Computational Bioscience Program, School of Medicine at the University of Colorado Denver: Core Faculty

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

Core Faculty

Lawrence Hunter, Ph.D. Program Director
Email: Larry.Hunter@ucdenver.edu
Home Page: http://compbio.ucdenver.edu/hunter/
Research Areas: Development and application of advanced computational techniques for biomedicine, particularly the application of statistical and knowledge–based techniques to the analysis of high–throughput data and of biomedical texts. Also, neurobiologically and evolutionarily informed computational models of cognition, and ethical issues related to computational bioscience.
PubMed Publications

Kevin Bretonnel Cohen, Ph.D. Director of the Biomedical Text Mining Group
Email:Kevin.Cohen@gmail.com
Home Page: http://compbio.ucdenver.edu/cohen/
Research Areas: Entity identification and normalization, information extraction, corpus linguistics, and computational lexical semantics, particularly in the molecular biology domain.
PubMed Publications

Jim Costello, Ph.D.
Email:James.Costello@ucdenver.edu
Home Page: Dr. Costello Home Page
Research Areas: Systems and network biology approaches to disentangle signaling pathways in cancer development; Computational modeling of how therapeutic compounds function across different genomic backgrounds.
PubMed Publications

Robin Dowell-Deen, Ph.D.

Email: Robin.Dowell@Colorado.edu

Home Page:http://mcdb.colorado.edu/labs1/dowelllab/

Research Areas: Application of machine learning, probabilistic models, and pattern recognition to large high throughput genomic datasets.
PubMed Publications

Debashis Ghosh, Ph.D.
Email: Debashis.Ghosh@ucdenver.edu
Research Areas: My research interests focus on the use of machine learning, multiple comparisons and multivariate statistical methods for the analysis of high-throughput data. I have focused most of my research on combining genomic data from either multiple datasets or from multiple studies. I have worked with transcriptomic, copy number, methylation and more recently, metabolomics and imaging data. Application areas I have worked in include cancer, diabetes, and ophthalmology. I have advised 12 Ph.D. students and one postdoctoral fellow in Biostatistics and Statistics on these topics. Students who would work with me in the future could expect to work on new analytical methods for large-scale datasets as well as begin to examine computational issues to enhance scalability.
PubMed Publications

Carsten Görg, Ph.D.

Email: Carsten.Goerg@ucdenver.edu

Home Page: http://compbio.ucdenver.edu/goerg

Research Areas: Design, development, and evaluation of visualizations and visual analytics tools for supporting biologists in analyzing large and complex datasets. Also, application of text analytics research approaches to the biomedical literature.
PubMed Publications

Michael Kahn, M.D. Pd.D.

Email: Michael.Kahn@childrenscolorado.org

Research Areas: Dr. Kahn is interested in the integration of clinical research and electronic medical records for clinical quality improvement, decision support and clinical research. As Director of the CCTSI Informatics Core, Dr. Kahn is interested in distributed research networks for comparative effectiveness research. His area of informatics research also includes measures of data quality, data completeness, and data validation, especially across multi-institutional data sharing environments.
PubMed Publications

Katerina Kechris, Ph.D.
Email: Katerina.Kechris@ucdenver.edu
Home Page: http://csph.ucdenver.edu/Sites/Kechris/
Research Areas: Development and application of statistical methods for analyzing molecular sequences and high throughput genomic data.
PubMed Publications

Sonia Leach , Ph.D.
Email: LeachS@NJHealth.org
Home Page: Dr. Leach Home Page

Research Areas: Research in the area of probabilistic graphical models and genomic data fusion, particularly for the tasks of gene prioritization, developing protein interaction networks and discovery of novel disease-gene associations.
PubMed Publications

Catherine Lozupone , Ph.D.
Email: Catherine.Lozupone@UCDENVER.EDU
Home Page: Dr. Lozupone Home Page
Research Areas: Microbiology of the human gut and impacts on health. The development of bioinformatics techniques for analysis of marker gener and genomic sequence data.
PubMed Publications

Christopher Miller, Ph.D.
Email:Chris.Miller@ucdenver.edu
Home Page : Dr. Miller Home Page
Research Areas: Genome-enabled and bioinformatic approaches to studying microbial communities. Novel experimental methods and computational algorithms for assembly and analysis of high-throughput sequencing data.
PubMed Publications

Martha Palmer, Ph.D.
Email: Martha.Palmer@colorado.edu

Home Page: http://verbs.colorado.edu/~mpalmer/index.html

Professor, Linguistics, Computer Science University of Colorado-Boulder
Research Areas: VerbNet, ACE-Prop Bank, CLEAR NLP, Chinese Corpus Annotation http://verbs.colorado.edu/~mpalmer/projects.html
PubMed Publications

Tzu Phang, Ph.D.
Email: Tzu.Phang@ucdenver.edu

Home Page: http://compbio.ucdenver.edu/ccp/Hunter_lab/Phang/index.html

Assistant Professor in the Division of Pulmonary Critical Care Medicine at the Department of Medicine.
Research Areas: developing computational and statistical algorithms for analyzing microarray data, with special emphasis on time-course experimental design and alternative splicing detection. He works directly with scientists to translate biological concept into algorithm for rapid exploration and discovery. He is also interested in how best to share the vast bioinformatics and genomics resources between multi-disciplinary scientists.
PubMed Publications

David Pollock, Ph.D. Graduate Studies Director
Email: David.Pollock@ucdenver.edu
Home Page: http://www.ucdenver.edu/academics/colleges/medicalschool/departments/biochemistry/Research/PrimaryFaculty/Pages/Pollock.aspx
Research Areas: Evolutionary genomics and molecular evolution, particularly the interaction between protein sequence, structure, function, and molecular co-evolution within and between proteins.
PubMed Publications

Michael Strong, Ph.D.

Email: StrongM@NJHealth.org

Home Page: http://www.stronglab.org/

Research Areas: Systems biology, genomics, and structural bioinformatics, particularly developing computational strategies to integrate genome sequence, gene expression, protein network, and protein structure information, with applications to respiratory diseases, including tuberculosis.
Publications

Joel Zylberberg, Ph.D.

Email: Joel.Zylberberg@ucdenver.edu

Home Page: http://www.ucdenver.edu/academics/colleges/medicalschool/departments/physiology/faculty/Pages/Zylberberg.aspx

Research Areas: Mechanisms underlying sensory perception. My research uses tools from machine learning and statistics to understand (a) how information is represented in the activities of sensory neurons; and (b) the neural circuit mechanisms that shape those representations. Active collaboration with experimenters is a key component of this research.
PubMed Publications