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Stephen Ramsey
Area of Expertise
Computational biology
Current Position
Senior Research Scientist
Degree
Ph.D, Physics, University of Maryland, 1997
Research Interests
Dr. Ramsey's area of research is computational molecular biology. In particular, he is focused on applying statistical methods to infer gene regulatory interactions in complex biological systems; and developing algorithms and tools for modeling the stochastic dynamics of biochemical networks.
Selected Publications
Ramsey S, Ozinsky A, Clark A, Smith KD, de Atauri P, Thorsson V, Orrell
D, Bolouri H. Transcriptional noise and cellular heterogeneity in
mammalian macrophages. 2006. Philos Trans R Soc Lond B Biol Sci. 361(1467):495-506
Hwang D, Rust AG, Ramsey S, Smith JJ, Leslie DM, Weston AD, de
Atauri P, Aitchison JD, Hood L, Siegel AF, Bolouri H. A data
integration methodology for systems biology. 2005. Proc Natl Acad Sci U S A.
102(48):17296-301
Ramsey S, Orrell D, and Bolouri H. Dizzy: Stochastic simulations
of large-scale genetic regulatory networks. 2006. J Bioinform Comp Biol. 3(2):415-436
Orrell D, Ramsey S, de Atauri P, Bolouri H. A method for
estimating stochastic noise in large genetic regulatory networks. 2005.
Bioinform. 15;21(2)208-17
de Atauri P, Orrell D, Ramsey S, Bolouri H. Evolution of 'design'
principles in biochemical networks. 2004. IEE Proc Sys Biol. 1(1):28-40
Relevant Links
Dizzy, a software program for simulating the stochastic dynamics of
biochemical networks.
Http://magnet.systemsbiology.net/software/Dizzy
ISBJava, a Java-based software library for computational biology.
http://magnet.systemsbiology.net/software/ISBJava
Pointillist, a data integration framework for systems biology (in
collaboration with Daehee Hwang).
Http://magnet.systemsbiology.net/software/Pointillist
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