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BIBE
2005
IEEE
116views Bioinformatics» more  BIBE 2005»
13 years 10 months ago
Stochastic Model of Protease-Ligand Reactions
Prediction of protein tertiary structure based on amino acid sequence is one of the most challenging open questions in computational molecular biology. The two most common experim...
Paul E. Anderson, Douglas W. Raiford, Deacon J. Sw...
NC
2008
122views Neural Networks» more  NC 2008»
13 years 4 months ago
Computation with finite stochastic chemical reaction networks
A highly desired part of the synthetic biology toolbox is an embedded chemical microcontroller, capable of autonomously following a logic program specified by a set of instructions...
David Soloveichik, Matthew Cook, Erik Winfree, Jeh...
TCSB
2010
13 years 2 months ago
Rule-Based Modeling of Transcriptional Attenuation at the Tryptophan Operon
Transcriptional attenuation at E.coli’s tryptophan operon is a prime example of RNA-mediated gene regulation. In this paper, we present a discrete stochastic model for this pheno...
Céline Kuttler, Cédric Lhoussaine, M...
JCB
2006
114views more  JCB 2006»
13 years 4 months ago
A General Modeling Strategy for Gene Regulatory Networks with Stochastic Dynamics
A stochastic genetic toggle switch model that consists of two identical, mutually repressive genes is built using the Gillespie algorithm with time delays as an example of a simpl...
Andre Ribeiro, Rui Zhu, Stuart A. Kauffman
AROBOTS
2011
12 years 11 months ago
Setpoint regulation for stochastically interacting robots
— We present an integral feedback controller that regulates the average copy number of a particular assembly in a system of stochastically interacting robots. The mathematical mo...
Nils Napp, Samuel Burden, Eric Klavins