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» Polynomial algebra of discrete models in systems biology
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CASES
2004
ACM
15 years 3 months ago
Analytical computation of Ehrhart polynomials: enabling more compiler analyses and optimizations
Many optimization techniques, including several targeted specifically at embedded systems, depend on the ability to calculate the number of elements that satisfy certain conditio...
Sven Verdoolaege, Rachid Seghir, Kristof Beyls, Vi...
CORR
2010
Springer
174views Education» more  CORR 2010»
14 years 9 months ago
Hybrid Numerical Solution of the Chemical Master Equation
We present a numerical approximation technique for the analysis of continuous-time Markov chains that describe networks of biochemical reactions and play an important role in the ...
Thomas A. Henzinger, Maria Mateescu, Linar Mikeev,...
CMSB
2009
Springer
15 years 4 months ago
Probabilistic Approximations of Signaling Pathway Dynamics
Systems of ordinary differential equations (ODEs) are often used to model the dynamics of complex biological pathways. We construct a discrete state model as a probabilistic appro...
Bing Liu, P. S. Thiagarajan, David Hsu
SIAMSC
2011
148views more  SIAMSC 2011»
14 years 4 months ago
Bootstrap AMG
We develop an algebraic multigrid (AMG) setup scheme based on the bootstrap framework for multiscale scientific computation. Our approach uses a weighted least squares definition...
Achi Brandt, James J. Brannick, K. Kahl, Irene Liv...
ECAL
2007
Springer
15 years 3 months ago
A Computational System for Investigating Chemotaxis-Based Cell Aggregation
Abstract. We have developed a software system that simulates chemotaxis-based cell aggregation in 2D. The model implemented within the system consists of such cell behaviors as che...
Manolya Eyiyurekli, Peter I. Lelkes, David E. Bree...