Larry Hunter, Ph.D.
Bioinformatics and computational biology
Director, Center for Computational Pharmacology
Associate Professor of Pharmacology, PMB & Computer Science
Dr. Hunter's laboratory, The Center for Computational Pharmacology, focuses on the development and application of advanced computational techniques for biomedicine, particularly the application of machine learning and statistical inference techniques to high-throughput molecular assays. Our recent focus has been on the analysis of gene expression array data and on the interpretation of such data in combination with other relevant knowledge, including quantitative trait loci, SNPs and other genetic polymorphisms.
The Center for Computational Pharmacology has developed several novel techniques for the analysis of gene expression array data, as well as other techniques for the inference of metabolic and signaling pathways from genetic, proteomic and transcriptional data, and for the management of large collections of biomedical documents. We have recently embarked on a concerted effort to bring knowledge-based systems to bear in computational biology, both for summarizing or annotating high throughput results, and for improving the quality of analysis of biomedical texts.
Publications
Proteomic Informatics, with Steven A. Russell, William Old, and Katheryn
A. Resing. International Review of Neurobiology v. 61 pp. 129-157, "Human
Brain Proteomics," ed. by Lisa Neuhold.
A resource for constructing customized test suites for molecular biology
entity identification systems, with K. Bretonnel Cohen, Lorraine Tanabe,
and Shuhei Kinoshita. BioLINK 2004: Linking biological literature, ontologies,
and databases: tools for users, 2004, pp. 1-8.
The Compositional Structure of Gene Ontology Terms, with P.V. Ogren, K.B. Cohen, G.K. Acquaah-Mensah, and J. Eberlein. Pacific Symposium on Biocomputing 2004 9:214-225.
Gene Expression in Human Cerebral Vascular Malformations; with Robert
Shenkar, J.P. Elliott, K. Diener, J. Gault, L.J. Hu, R.J. Cohrs, T. Phang,
R.E. Breeze, and I.A. Awad. Neurosurgery, 2003, Jul;3(7):1335-44.
Trajectory Clustering: A Non-Parametric Method for Grouping Gene Expression
Time Courses, With Applications to Mammary Development; with Tzu Phang,
Michael Rudolph and Margaret Neville. Pacific Symposium on Biocomputing
2003 8:351-62.
Ontologies for Programs, Not People. Genome Biology 2002, 3(6):interactions1002.1-1002.2.
Contrast and variability in gene names, with Kevin Cohen, Andy Dolbey and George Acquaah-Mensah Proceedings of the Workshop on Natural Language Processing in the Biomedical Domain, Philadelphia, July 2002, pp. 14-20 Association for Computational Linguistics.
A Bioinformatics Tool to Mine Sequences for Microarray Studies of Mouse Models of Oncogenesis, with Mary Edgerton, Ron Taylor, Jon Powell, Rich Simon, and Ed Liu, Bioinformatics, 2002, 18(5):774-775.
GEST: a gene expression search tool based on a novel Bayesian similarity metric, with Ron Taylor, Sonia Leach and Richard Simon. Bioinformatics. 2001 Jun;17 Suppl 1:S115-S122.
Visual Management of Large Scale Data Mining Projects, with Imran Shah.
Pacific Symposium on Biocomputing, 5:275-287, 2000.
Edgar: Extraction of Drugs, Genes and Relations from the Biomedical Literature,
with Thomas C. Rindflesch, Lorraine Tanabe,and John N. Weinstein, Pacific
Symposium on Biocomputing, 5:514-525, 2000.
MedMiner: An Internet Tool for Filtering and Organizing Biomedical Information,
with Lorraine Tanabe and John N. Weinstein. Biotechniques, 27(6):1210-7,
Dec 1999.
