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Computational Methods in Systems Biology: 11th International Conference, CMSB 2013, Klosterneuburg, Austria, September 22-24, 2013. Proceedings

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This book constitutes the proceedings of the 11th International Conference on Computational Methods in Systems Biology, CMSB 2013, held in Klosterneuburg, Austria, in September 2013. The 15 regular papers included in this volume were carefully reviewed and selected from 27 submissions. They deal with computational models for all levels, from molecular and cellular, to organs and entire organisms.

Author(s): Jakob Ruess, John Lygeros (auth.), Ashutosh Gupta, Thomas A. Henzinger (eds.)
Series: Lecture Notes in Computer Science 8130
Edition: 1
Publisher: Springer-Verlag Berlin Heidelberg
Year: 2013

Language: English
Pages: 284
Tags: Computational Biology/Bioinformatics; Computation by Abstract Devices; Simulation and Modeling; Computer Appl. in Life Sciences; Software Engineering; Symbolic and Algebraic Manipulation

Front Matter....Pages -
On the Use of the Moment Equations for Parameter Inference, Control and Experimental Design in Stochastic Biochemical Reaction Networks....Pages 1-4
Numerical Approximation of Rare Event Probabilities in Biochemically Reacting Systems....Pages 5-18
An Approximate Execution of Rule-Based Multi-level Models....Pages 19-32
Computing Cumulative Rewards Using Fast Adaptive Uniformisation....Pages 33-49
Linking Discrete and Stochastic Models: The Chemical Master Equation as a Bridge between Process Hitting and Proper Generalized Decomposition....Pages 50-63
Coarse-Grained Brownian Dynamics Simulation of Rule-Based Models....Pages 64-77
Modelling and Analysis of Phase Variation in Bacterial Colony Growth....Pages 78-91
Using Probabilistic Strategies to Formalize and Compare α -Synuclein Aggregation and Propagation under Different Scenarios....Pages 92-105
Dynamic Image-Based Modelling of Kidney Branching Morphogenesis....Pages 106-119
Statistical Model Checking Based Calibration and Analysis of Bio-pathway Models....Pages 120-134
Constraint Programming in Community-Based Gene Regulatory Network Inference....Pages 135-149
ABC–Fun: A Probabilistic Programming Language for Biology....Pages 150-163
A Temporal Logic Approach to Modular Design of Synthetic Biological Circuits....Pages 164-177
A Lattice-Theoretic Framework for Metabolic Pathway Analysis....Pages 178-191
On the Hybrid Composition and Simulation of Heterogeneous Biochemical Models....Pages 192-205
On the Verification and Correction of Large-Scale Kinetic Models in Systems Biology....Pages 206-219
Context-Sensitive Flow Analyses: A Hierarchy of Model Reductions....Pages 220-233
Back Matter....Pages -