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ICASSP
2011
IEEE
12 years 11 months ago
Message-passing for base-calling in sequencing-by-synthesis systems
Performance of DNA sequencing-by-synthesis systems is fundamentally limited by the stochastic nature of the underlying biochemical process. We develop a novel graphical representa...
Sang Hyun Lee, Manohar Shamaiah, Haris Vikalo
SAC
2008
ACM
13 years 7 months ago
Bayesian inference for a discretely observed stochastic kinetic model
The ability to infer parameters of gene regulatory networks is emerging as a key problem in systems biology. The biochemical data are intrinsically stochastic and tend to be observ...
Richard J. Boys, Darren J. Wilkinson, Thomas B. L....
CORR
2010
Springer
135views Education» more  CORR 2010»
13 years 4 months ago
SABRE: A Tool for Stochastic Analysis of Biochemical Reaction Networks
The importance of stochasticity within biological systems has been shown repeatedly during the last years and has raised the need for efficient stochastic tools. We present SABRE, ...
Frédéric Didier, Thomas A. Henzinger...
DAC
2007
ACM
14 years 8 months ago
Synthesizing Stochasticity in Biochemical Systems
Randomness is inherent to biochemistry: at each instant, the sequence of reactions that fires is a matter of chance. Some biological systems exploit such randomness, choosing betw...
Brian Fett, Jehoshua Bruck, Marc D. Riedel
BMCBI
2010
131views more  BMCBI 2010»
13 years 7 months ago
A comparison of approximation techniques for variance-based sensitivity analysis of biochemical reaction systems
Background: Sensitivity analysis is an indispensable tool for the analysis of complex systems. In a recent paper, we have introduced a thermodynamically consistent variance-based ...
Hong-Xuan Zhang, John Goutsias