My laboratory is focused on developing new technologies for drug development using bioinformatics. Cells are defined by their genomics and proteomics, which govern their growth and response to the environment. Drugs are defined by their structure, interaction with cellular targets and cellular processes. Cells are remarkable sensors of both specific and non-specific perturbations caused by drugs. The advent of microarrays has made possible the global analysis of gene expression. We are using gene expression profile patterns to define how cells respond to drugs and the pathways involved. The patterns we identify represent fingerprints for each drug, which we use for functional categorization of drugs and the pathways with which the drugs interact. Our goal is to define how structure relates to pathway interactions.
Recent Publications
Ko, D., Xu, W., and Windle, B. Gene Function Classification using NCI-60 Cell Line Gene Expression Profiles. In Press - Computational Biology and Chemistry, 2005.
Windle, B and Guiseppi-Elie, A. Microarrays and Gene Expression Profiling Applied to Drug Research. (2003) In: Burger's Medicinal Chemistry and Drug Discovery, 6th edition (D. Abraham, ed.).
Maine IP., Chen S-F., Windle, B. Effect of dGTP Concentration on Human and CHO Telomerase. Biochemistry. 38:15325-15332, 1999.
Windle B., Parra I., Silvas E. Analysis of Structure and Function by High Resolution Visual Mapping of Extended DNA. In: Introduction to Fluorescence In Situ Hybridization: Principles and Clinical Applications (M. Andreeff, D. Pinkel, ed.), 119-132, 1999.
Windle, B., Maine I. Telomeres and Telomerase as Cancer Therapeutic Targets. Current Opinion in Oncologic Endocrine and Metabolic Drugs. 1:170-183, 1999.
Izbicka E., Wheelhouse R.T., Raymond E., Davidson K.K., Lawrence R.A., Sun D., Windle B.E., Hurley L.H., Von Hoff D.D. Effects of Cationic Porphyrins as G-Quadruplex Interactive Agents in Human Tumor Cells. Cancer Research 59:639-644, 1999.
Raymond E, Sun D, Izbicka E, Mangold G, Silvas E, Windle B, Sharma S, Soda H, Laurence R, Davidson K, Von Hoff DD. A human breast cancer model for the study of telomerase inhibitors based on a new biotinylated-primer extension assay.Br J Cancer 80:1332-1341, 1999.
