Computational Methods in Systems Biology: 6th International Conference CMSB 2008, Rostock, Germany, October 12-15, 2008. ProceedingsMonika Heiner, Adelinde M. Uhrmacher Springer Science & Business Media, 07.10.2008 - 403 Seiten This book constitutes the refereed proceedings of the 6th International Conference on Computational Methods in Systems Biology, CMSB 2008, held in Rostock, Germany, in September 2008. The 21 revised full papers presented together with the summaries of 5 invited papers were carefully reviewed and selected from more than 60 submissions. The papers cover theoretical or applied contributions that are motivated by a biological question focusing on modeling approaches, including process algebra, simulation approaches, analysis methods, in particular model checking and flux analysis, and case studies. |
Inhalt
Qualitative Modeling and Simulation of Bacterial Regulatory Networks | 1 |
Integrated Analysis from Abstract Stochastic Process Algebra Models | 2 |
An Exact Brownian Dynamics Method for Cell Simulation | 5 |
Multiscale Modelling of Neuronal Signalling | 7 |
Systems Biology of Halophilic Archaea | 8 |
A Partial Granger Causality Approach to Explore Causal Networks Derived From Multiparameter Data | 9 |
Functional Evolution of RibozymeCatalyzed Metabolisms in a GraphBased ToyUniverse | 28 |
ComponentBased Modelling of RNA Structure Folding | 44 |
On Parallel Stochastic Simulation of Diffusive Systems | 191 |
LargeScale Design Space Exploration of SSA | 211 |
Applications to the Automated Analysis of TCell Receptor Signaling Pathway | 231 |
On a Continuous Degree of Satisfaction of Temporal Logic Formulae with Applications to Systems Biology | 251 |
A Model Checking Approach to the Parameter Estimation of Biochemical Pathways | 269 |
Compositional Definitions of Minimal Flows in Petri Nets | 288 |
On Inner and Outer Descriptions of the SteadyState Flux Cone of a Metabolic Network | 308 |
A Combinatorial Approach to Reconstruct Petri Nets from Experimental Data | 328 |
A Language for Biochemical Systems | 63 |
The Attributed Pi Calculus | 83 |
A Process Algebra for Biochemical Modelling | 103 |
Automatic Complexity Analysis and Model Reduction of Nonlinear Biochemical Systems | 123 |
Formal Analysis of Abnormal Excitation in Cardiac Tissue | 141 |
The Distribution of Mutational Effects on Fitness in a Simple Circadian Clock | 156 |
SEDML An XML Format for the Implementation of the MIASE Guidelines | 176 |
Analyzing a Discrete Model of Aplysia Central Pattern Generator | 347 |
Stochastic Analysis of Amino Acid Substitution in Protein Synthesis | 367 |
A Stochastic Single Cell Based Model of BrdU Measured Hematopoietic Stem Cell Kinetics | 387 |
Analyzing a Discrete Model of Aplysia Central Pattern Generator | 402 |
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Häufige Begriffe und Wortgruppen
aa-tRNA abstract active algorithm amino acid analysis approach base pair Bayesian networks biochemical systems Bioinformatics BrdU causality cell CellML chemical CMSB codon complex components computational constraints corresponding defined definition denote desired behaviour distribution dynamics enzymes equations event example experimental Figure flux cone formal formula function gene Granger causality graph Heidelberg Heidelberg 2008 Heiner implementation initial input interaction KaiC kinetic lin.space(C linear Markov chains matrix metabolic networks metabolites method minimal proper face model checking module molecular molecules mRNA mutations neurons nucleotides output parameter pathway pattern Petri nets phase PLAMIC model PLTLc pMHC probabilistic domain process algebra Program properties protein random reaction reconfigured represent ribosome robustness semantics sequence signaling solution species Springer stochastic simulation structure supp(d Systems Biology T-flows temporal logic Theorem tion trajectories transition tRNA Uhrmacher values variables vector violation degree voltage