Focused Research Group

"Stochastic Models for Intracellular Reaction Networks"

About FRG • People • Meeting • Publications • Links• Contact

 


NSF*  Description  of the FRG


About FRG

Darwin portrait

Darwin portrait

This project will systematically develop stochastic models for chemical reaction networks, beginning with classical Markov chain models and developing new models that take into account the stepwise development of reactions involving RNA and DNA molecules. Specific issues to be addressed include scaling limits based on the wide range of time and other quantitative scales in the system, model reduction through scaling limit approximations and other approaches, the implications of the combinatorial restrictions the reaction structure places on the system, sensitivity analysis for the parameters of the stochastic models, and statistical methods for model validation based on data that is frequently obtained through indirect and/or aggregated measurements. The project will also provide a fertile training ground for graduate students and postdoctoral researchers. There is a high demand for well-trained mathematical scientists with the interest and expertise necessary to contribute to the solution of problems arising in cell and molecular biology.

People

Grzegorz Rempala (University of Louisville)
Thomas G. Kurtz (University of Wisconsin-Madison)
John Yin (University of Wisconsin- Madison)
Gheorghe Craciun (University of Wisconsin-Madison)
Ruth Williams (University of California- San Diego)
Lea Popovic (Cornell University)
David Anderson (University of Wisconsin-Madison)
Anil Devarapu (University of Louisville)
Hye Won Kang (University of Wisconsin-Madison)

FRG Meetings

Recent FRG meeting was concluded at University of California, San Diego during January 3-5, 2008. Speakers presentation slides( pdf files) are not publicly available. You need to provide a password in order to access these files.

Publications

  • Amar Singh, Eric Rouchka, Greg Rempala, Caleb Bastian and Thomas Knudsen, Integrative database management for mouse development: Systems and concepts , Birth Defects Research Part C: Embryo Today: Reviews, 2007, Vol. 81, No. 1 pp.1-19
  • Greg Rempala, Kenneth S. Ramos, Ted Kalbfleisch and Ivo Teneng, Validation of a Mathematical Model of Gene Transcription in Aggregated Cellular Systems: Application to L1 Retrotransposition , Journal of Computational Biology, 2007, Vol. 14, No. 3 pp.339-349
  • G. Craciun, J. W. Helton and R. J. Williams Homotopy Methods for Counting Reaction Network Equilibria .

  • Karen Ball, Thomas G. Kurtz, Lea Popovic and Greg Rempala, "Asymptotic Analysis of Multiscale Approximations to Reaction Networks", Ann. of Appl. Probab, 2006, Vol. 16, No. 4 pp.1925-1961

    Contact

    Prof. Greg Rempala
    Department of Mathematics
    University of Louisville
    Louisville, KY-40292
       E-mail: a0deva03@louisville.edu

      * This material is based upon work supported by the National Science Foundation under Grant No. 0553701. Any opinions, findings and conclusions or recomendations expressed in this material are those of the author(s) and do not necessarily reflect the views of the National Science Foundation (NSF).