I. Enabling Information and Integration Technologies for Systems Biology -- II. Foundations of Biochemical Network Analysis and Modeling -- III. Computer Simulations of Dynamic Networks -- IV. Multi-Scale Representations of Cells and Emerging Phenotypes.

Introducing computational systems biology / Andres Kriete and Roland Eils -- Enabling information and integration technologies for systems biology. Databases for systems biology / Jürgen Eils ... [et al.] -- Natural language processing and ontology-enhanced biomedical literature mining for systems biology / Xiaohua Hu -- Integrated imaging informatics / Barham Parvin ... [et al.] -- Simpathica : a computational systems biology tool within the valis bioinformatics environment / Bud mishra ... [et al.] -- Standards, platforms, and applications / Herbert M. Sauro -- Foundations of biochemical network analysis and modeling. Introduction to computational models of biochemical reaction networks / F.J. Bruggeman ... [et al.] -- Biological foundations of signal transduction and the systems biology perspective / Ursula Klingmüller -- Reconstruction of metabolic network from genome information and its structural and functional analysis / Hong-Wu Ma and An-Ping Zeng -- Integrated regulatory and metabolic models / Markus W. Covert -- Computer simulations of dynamic networks. A discrete approach to network modeling / Reinhard Laubenbacher and Pedro Mendes -- Gene networks : estimation, modeling and simulation / Seiya Imoto, Hiroshi Matsuno, and Satoru Miyano -- Computational models for circadian rhythms : deterministic versus stochastic approaches / Jean-Christophe Leloup, Didier Gonze, and Albert Goldbeter -- Multi-scale representations of cells and emerging phenotypes. Multistability and multicellularity : cell fates as high-dimensional attractors of gene regulatory networks / Sui Huang -- Spatio-temporal systems biology / Avijit ghosh ... [et al.] -- Cytomics--from cell states to predictive medicine / Günter Valet ... [et al.] -- The IUPS Physiome Project : progress and plans / Peter Hunter ... [et al.].