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CMSB
2009
Springer
14 years 3 months ago
The Equivalence between Biology and Computation
A major challenge in computational systems biology is the articulation of a biological process in a form which can be understood by the biologist yet is amenable to computational e...
John K. Heath
CMSB
2009
Springer
14 years 3 months ago
A Prize-Collecting Steiner Tree Approach for Transduction Network Inference
Marc Bailly-Bechet, Alfredo Braunstein, Riccardo Z...
CMSB
2009
Springer
14 years 3 months ago
Approximation of Event Probabilities in Noisy Cellular Processes
Molecular noise, which arises from the randomness of the discrete events in the cell, significantly influences fundamental biological processes. Discrete-state continuous-time st...
Frédéric Didier, Thomas A. Henzinger...
CMSB
2009
Springer
14 years 3 months ago
Computing Reachable States for Nonlinear Biological Models
Abstract. In this paper we describe reachability computation for continuous and hybrid systems and its potential contribution to the process of building and debugging biological mo...
Thao Dang, Colas Le Guernic, Oded Maler
CMSB
2009
Springer
14 years 3 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
CMSB
2009
Springer
14 years 3 months ago
Dynamic Compartments in the Imperative pi-Calculus
Dynamic compartments with mutable configurations and variable volumes are of basic interest for the stochastic modeling of biochemistry in cells. We propose a new language to expr...
Mathias John, Cédric Lhoussaine, Joachim Ni...
CMSB
2009
Springer
14 years 3 months ago
A Bayesian Approach to Model Checking Biological Systems
Recently, there has been considerable interest in the use of Model Checking for Systems Biology. Unfortunately, the state space of stochastic biological models is often too large f...
Sumit Kumar Jha, Edmund M. Clarke, Christopher Jam...
CMSB
2009
Springer
14 years 3 months ago
Modelling Biological Clocks with Bio-PEPA: Stochasticity and Robustness for the Neurospora crassa Circadian Network
Circadian clocks are biochemical networks, present in nearly all living organisms, whose function is to regulate the expression of specific mRNAs and proteins to synchronise rhyth...
Ozgur E. Akman, Federica Ciocchetta, Andrea Degasp...
CIS
2009
Springer
14 years 3 months ago
BARI: A Distributed Key Management Approach for Wireless Body Area Networks
—In recent years, use of sensors to measure the biometrics and movements of human body have resulted in the design of wireless body area networks (WBAN). Although WBANs consist o...
Syed Muhammad Khaliq-ur-rehman Raazi, Heejo Lee, S...