Osier lab at RIT

The Osier Lab at RIT

Office: 08-1338
Phone: 585-475-4392
Email: Web form
Current schedule and courses

Research interests

Our lab group focusses on custom LIMS (Laboratory Information Management Systems) and the analysis of "large" biological data sets. We emphasize Web interfaces to ease collaboration within user research labs. For analysis we often utilize biological ontologies and Genetic Algorithms. Our weapons of choice are usually Perl and MySQL.

Currently we are working in collaboration with Dr. Dina Newman, Dr. Gary Skuse, and Dr. Sandi Connelly. These projects involve the study of presbycusis (age related hearing loss), the evolution of viral genomes, and the effects of UV-induced damage.

Select publications

Uduman M, Reynolds C, Osier MV. (2006) A Genetic Algorithm and a Searching Heuristic for Application in Bioinformatics. In "Intelligent Engineering Systems Through Artificial Neural Networks-Volume 16." ASME Press.
Osier, M.V., Zhao, H., and Cheung, K.-H. (2004) Handling multiple testing while interpreting microarrays with the Gene Ontology. BMC Bioinformatics, 5:124.
Osier, M.V., Pakstis, A.J., Goldman, D., Edenberg, H.J., Kidd, J.R., and Kidd, K.K. (2002) A Proline-Threonine substitution in codon 351 of ADH1C is common in Native Americans. Alcoholism Clinical and Experimental Research, 26:1759-1763.
Osier, M.V., Pakstis, A.J., Soodyall, H., Comas, D., Goldman, D., Odunsi, K., Okonofua, F., Parnas, J., Schulz, L., Bertranpetit, J., Bonne-Tamir, B., Lu, R.-B., Kidd, J.R., and Kidd, K.K. (2002) A Global Perspective on Genetic Variation at the ADH Genes Reveals Unusual Patterns of Linkage Disequilibrium and Diversity. American Journal of Human Genetics, 71:84-99.
Cheung, K.H.^*, Miller, P.L, Kidd, J.R., Kidd, K.K., Osier, M.V.^*, Pakstis, A.J. (2000) ALFRED: a Web-accessible allele frequency database. Pacific Symposium on Biocomputing 639-650. * Joint first-author

Full CV

Current student researchers

	Adam Cornwell: Meta-ontology for biology as a tool for managing public domain multimedia.
	Kyle Dewey: Developing a public Web interface to an existing database of mitochondrial variation which defines specific haplogroups and subhaplogroups.
	Chris Fucile: Development of a Web-accessible database for presbycusis research.

Past student researchers

Sean Connolly - Presbycusis database development
Anthony Corbett - Web Service classification
Sherry Dadgar - Data mining of influenza genomic sequence.
Kyle Dewey - Presbycusis glossary
Lee Edsall - NatureSpy development
T.J. Esposito - Permutation of Cluster Rank Analysis
Alex Haugh - Development of a Web Service to provide the maximum biclique solution for data in ALFRED
Jonathan Keeling - NatureSpy data collection through cellular networks
Amanda McFedries - Comparative identification of transcription factor binding sites
Phil Plummer - NatureSpy development
Rhea Sanchez - Automated extraction of RT-PCR data and analysis of mitochondrial genetic variation for presbycusis.
Brian Selinsky - Neural network for analysis of high dimensionality data
Ben Snider - Analysis of presbycusis genetics data
Brent Strong - Comparative genomics
Vishal Thovarai - Data mining of influenza genomic sequence.
Mohamed Uduman - Solving the maximum biclique in human population genetics data from ALFRED
Mellisa Wilbert - Data mining of influenza genomic sequence.
Christina Witkowski - Cluster Rank Analysis development
Greg Wyllie - Automated validation of Presbycusis Database contents.
Michael Zeller - Meta-ontology for biology as a tool for managing public domain multimedia.

Last updated 3/18/09