Vol. 1. Section 1. Basic Concepts in Medical Systems Biology -- 1. Pathway Biology Approach to Medicine -- 2. Systems and Control Theory for Medical Systems Biology -- 3. Mathematical Description of Time Delays in Pathways Cross Talk -- 4. Deterministic Modeling in Medicine -- 5. Synthetic Biology as a Proof of Systems Biology --

Section 2. Advanced Computational Methods for Systems Biology -- 6. Computational Models for the Analysis of Modern Biological Data -- 7. Computer Aided Knowledge Discovery in Biomedicine --

Section 3. Genomics and Bioinformatics for Systems Biology -- 8. Function and Homology of Proteins Similar in Sequence: Phylogenetic Profiling -- 9. Computational Methods for the Prediction of GPCRs Coupling Selectivity -- 10. Bacterial B-Barrel Outer Membrane Proteins: A Common Structural Theme Implicated in a Wide Variety of Functional Roles --

Section 4. Experimental Techniques for Systems Biology -- 11. Clustering Methods for Gene-Expression Data -- 12. Uncovering Fine Structure in Gene Expression Profile by Maximum Entropy Modeling of cDNA Microarray Images and Kernel Density Methods -- 13. Gene Expression Profiling with the BeadArray (TM) Platform -- 14. The Affymetrix GeneChip (R) Microarray Platform -- 15. Alternative Isoform Detection Using Exon Arrays -- 16. Gene Expression in Microbial Systems for Growth and Metabolism -- 17. Alternative Splicing and Disease --

Section 5. Systems Biology and Aging -- 18. Mathematical Modeling of the Aging Process -- 19. The Sebaceous Gland: A Model of Hormonal Aging --

Section 6. Systems Biology Applications in Medicine -- 20. Systems Biology Applied to Cancer Research -- 21. Systems Biology Strategies in Studies of Energy Homeostasis In Vivo -- 22. Approaching Type 2 Diabetes Mellitus by Systems Biology -- 23. Systems Biology and Infectious Diseases -- 24. Systems Biology of Human-Pathogenic Fungi --

Vol. 2. Section 7. Systems Biology and Drug Design -- 25. Development of Specific Gamma Secretase Inhibitors -- 26. In Machina Systems for the Rational De Novo Peptide Design -- 27. Applications of Metabolic Flux Balancing in Medicine --

Section 8. Data Integration and Data Mining -- 28. Multi-Level Data Integration and Data Mining in Systems Biology -- 29. Methods for Reverse Engineering of Gene Regulatory Networks -- 30. Data Integration for Regulatory Gene Module Discovery -- 31. Discrete Networks as a Suitable Approach for the Analysis of Genetic Regulation -- 32. Investigating the Collective Behavior of Neural Networks: A Review of Signal Processing Approaches -- 33. The System for Population Kinetics: Open Source Software for Population Analysis --

Section 9. Systems Biology in Photochemical Processes -- 34. Photosynthesis: How Proteins Control Excitation Energy Transfer -- 35. Photodynamic Therapy: A Systems Biology Approach -- 36. Modeling of Porphyrin Metabolism with PyBioS --

Section 10. Modeling Cellular Physiology - 37. Interference Microscopy for Cellular Studies -- 38. Fluorescence Imaging of Mitochondrial Long-Term Depolarization in Cancer Cells Exposed to Heat-Stress --

Section 11. Tools for Molecular Networks -- 39. Protein Interactions and Diseases -- 40. The Breadth and Depth of BioMedical Molecular Networks: The Reactome Perspective --

Section 12. Mathematical Modeling Approaches -- 41. Entropy and Thermodynamics in Biomolecular Simulation -- 42. Model Development and Decomposition in Physiology -- 43. A Pandemic Avian Influenza Mathematical Model -- 44. Dengue Fever: A Mathematical Model with Immunization Program --

Section 13. Data Processing in Histopathology -- 45. Automated Image Analysis Approaches in Histopathology.