9. CMSB 2011: Paris, France

• Thomas A. Henzinger, Maria Mateescu:
  Propagation models for computing biochemical reaction networks. 1-3
  
• Pedro Mendes, Natalie J. Stanford, Kieran Smallbone:
  Kinetic modelling of large-scale metabolic networks. 5-6
  
• Denis Thieffry:
  Logical modelling of haematopoietic cell fate reprogramming. 7
  
• Eugen Czeizler, Vladimir Rogojin, Ion Petre:
  The phosphorylation of the heat shock factor as a modulator for the heat shock response. 9-23
  
• Jimmy Omony, Astrid R. Mach-Aigner, Leo H. de Graaff, Gerrit van Straten, Anton J. B. van Boxtel:
  Evaluation of design strategies for time course experiments in genetic networks: the XlnR regulon in Aspergillus niger. 25-33
  

Stochastic models

• Sucheendra K. Palaniappan, S. Akshay, Blaise Genest, P. S. Thiagarajan:
  A hybrid factored frontier algorithm for dynamic Bayesian network models of biopathways. 35-44
  
• Alessio Angius, András Horváth:
  Analysis of stochastic reaction networks with Markov reward models. 45-54
  
• Jacques Demongeot, Sylvain Sené:
  The singular power of the environment on stochastic nonlinear threshold Boolean automata networks. 55-64
  

High performance computing

• Diego Darriba, Guillermo L. Taboada, Ramon Doallo, David Posada:
  HPC selection of models of DNA substitution. 65-72
  
• Martin Falk, Michael Ott, Thomas Ertl, Michael Klann, Heinz Koeppl:
  Parallelized agent-based simulation on CPU and graphics hardware for spatial and stochastic models in biology. 73-82
  
• Hiroyuki Kuwahara, Xin Gao:
  An efficient parallel stochastic simulation method for analysis of nonviral gene delivery systems. 83-93
  
• Irene Sánchez-Linares, Horacio Emilio Pérez Sánchez, Ginés D. Guerrero, José M. Cecilia, José M. García:
  Accelerating multiple target drug screening on GPUs. 95-102
  

Simulation

• Ezio Bartocci, Elizabeth Cherry, James Glimm, Radu Grosu, Scott A. Smolka, Flavio H. Fenton:
  Toward real-time simulation of cardiac dynamics. 103-112
  
• Xuefeng Gao, Sabin Tabirca, Mark Tangney:
  Computer simulation of Salmonella typhimurium accumulation within tumors. 113-119
  

Discrete models

• Hannes Klarner, Heike Siebert, Alexander Bockmayr:
  Parameter inference for asynchronous logical networks using discrete time series. 121-130
  
• Luca Cardelli, Cosimo Laneve:
  Reversible structures. 131-140
  

Spatial models

• Mark Burkitt, Dawn C. Walker, Daniela M. Romano, Alireza Fazeli:
  Modelling sperm behaviour in a 3D environment. 141-149
  
• A. Murthy, Ezio Bartocci, Flavio H. Fenton, James Glimm, R. Gray, Scott A. Smolka, Radu Grosu:
  Curvature analysis of cardiac excitation wavefronts. 151-160
  
• Arne T. Bittig, Fiete Haack, Carsten Maus, Adelinde M. Uhrmacher:
  Adapting rule-based model descriptions for simulating in continuous and hybrid space. 161-170
  
• Nicolas Oury, Gordon D. Plotkin:
  Coloured stochastic multilevel multiset rewriting. 171-181
  

Multiscale models

• Nicola Paoletti, Pietro Liò, Emanuela Merelli, Marco Viceconti:
  Osteoporosis: a multiscale modeling viewpoint. 183-193
  
• Andrea Degasperi, Muffy Calder:
  Multi-scale modelling of biological systems in process algebra with multi-way synchronisation. 195-208
  
• Qian Gao, Fei Liu, David Gilbert, Monika Heiner, David Tree:
  A multiscale approach to modelling planar cell polarity in Drosophila wing using hierarchically coloured Petri nets. 209-218
  

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