Handbook of Research on Systems Biology Applications in Medicine

Title......Page 2
Editorial Advisory Board......Page 4
List of Contributors......Page 5
Table of Contents......Page 8
Detailed Table of Contents......Page 16
Foreword......Page 34
Preface......Page 36
Acknowledgment......Page 41
Pathway Biology Approach to Medicine......Page 44
Systems and Control Theory for Medical Systems Biology......Page 54
Mathematical Description of Time Delays in Pathways Cross Talk......Page 70
Deterministic Modeling in Medicine......Page 117
Synthetic Biology as a Proof of Systems Biology......Page 140
Computational Models for the Analysis of Modern Biological Data......Page 160
Computer Aided Knowledge Discovery in Biomedicine......Page 169
Function and Homology of Proteins Similar in Sequence: Phylogenetic Profiling......Page 186
Computational Methods for the Prediction of GPCRs Coupling Selectivity......Page 210
Bacterial β-Barrel Outer Membrane Proteins: A Common Structural Theme Implicated in a Wide Variety of Functional Roles......Page 225
Clustering Methods for Gene-Expression Data......Page 252
Uncovering Fine Structure in Gene Expression Profile by Maximum Entropy Modeling of cDNA Microarray Images and Kernel Density Methods......Page 264
Gene Expression Profiling with the BeadArray Platform......Page 282
The Affymetrix GeneChip® Microarray Platform......Page 294
Alternative Isoform Detection Using Exon Arrays......Page 305
Gene Expression in Microbial Systems for Growth and Metabolism......Page 321
Alternative Splicing and Disease......Page 334
Mathematical Modeling of the Aging Process......Page 355
The Sebaceous Gland: A Model of Hormonal Aging......Page 374
Systems Biology Applied to Cancer Research......Page 382
Systems Biology Strategies in Studies of Energy Homeostasis In Vivo......Page 397
Approaching Type 2 Diabetes Mellitus by Systems Biology......Page 404
Systems Biology and Infectious Diseases......Page 420
Systems Biology of Human-Pathogenic Fungi......Page 446
Development of Specific Gamma Secretase Inhibitors......Page 466
In Machina Systems for the Rational De Novo Peptide Design......Page 481
Applications of Metabolic Flux Balancing in Medicine......Page 501
Multi-Level Data Integration and Data Mining in Systems Biology......Page 519
Methods for Reverse Engineering of Gene Regulatory Networks......Page 540
Data Integration for Regulatory Gene Module Discovery......Page 559
Discrete Networks as a Suitable Approach for the Analysis of Genetic Regulation......Page 573
Investigating the Collective Behavior of Neural Networks: A Review of Signal Processing Approaches......Page 584
The System for Population Kinetics: Open Source Software for Population Analysis......Page 599
Photosynthesis: How Proteins Control Excitation Energy Transfer......Page 616
Photodynamic Therapy: A Systems Biology Approach......Page 631
Modeling of Porphyrin Metabolism with PyBioS......Page 686
Interference Microscopy for Cellular Studies......Page 699
Fluorescence Imaging of Mitochondrial Long-Term Depolarization in Cancer Cells Exposed to Heat-Stress......Page 716
Protein Interactions and Diseases......Page 737
The Breadth and Depth of BioMedical Molecular Networks: The Reactome Perspective......Page 757
Entropy and Thermodynamics in Biomolecular Simulation......Page 774
Model Development and Decomposition in Physiology......Page 802
A Pandemic Avian Influenza Mathematical Model......Page 841
Dengue Fever: A Mathematical Model with Immunization Program......Page 852
Automated Image Analysis Approaches in Histopathology......Page 869
About the Contributors......Page 894
Index......Page 912