Table of Contents:
  • Systems Biology: Toward System-level Understanding of Biological Systems / Hiroaki Kitano
  • Advanced Measurement Systems
  • Automatic Acquisition of Cell Lineage through 4D Microscopy and Analysis of Early C. elegans Embryogenesis / Shuichi Onami, Shugo Hamahashi, Masao Nagasaki, Satoru Miyano, Hiroaki Kitano
  • Reverse Engineering and Data Mining from Gene Expression Data
  • The DBRF Method for Inferring a Gene Network from Large-Scale Steady-State Gene Expression Data / Shuichi Onami, Koji M. Kyoda, Mineo Morohashi, Hiroaki Kitano
  • The Analysis of Cancer Associated Gene Expression Matrices / Mattias Wahde, Zoltan Szallasi
  • Automated Reverse Engineering of Metabolic Pathways from Observed Data by Means of Genetic Programming / John R. Koza, William Mydlowec, Guido Lanza, Jessen Yu, Martin A. Keane
  • Software for Modeling and Simulation
  • The ERATO Systems Biology Workbench: An Integrated Environment for Multiscale and Multitheoretic Simulations in Systems Biology / Michael Hucka, Andrew Finney, Herbert Sauro, Hamid Bolouri, John Doyle, Hiroaki Kitano
  • Automatic Model Generation for Signal Transduction with Applications to MAP-Kinase Pathways / Bruce E. Shapiro, Andre Levchenko, Eric Mjolsness
  • Modeling Large Biological Systems From Functional Genomic Data: Parameter Estimation / Pedro Mendes
  • Cellular Simulation
  • Towards a Virtual Biological Laboratory / Jorg Stelling, Andreas Kremling, Martin Ginkel, Katja Bettenbrock, Ernst Dieter Gilles
  • Computational Cell Biology
  • The Stochastic Approach / Thomas Simon Shimizu, Dennis Bray.