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Interdisciplinary research and applications in bioinformatics, computational biology, and environmental sciences / Limin Angela Liu, Dong-Qing Wei and Yixue Li, [editors]. — Hershey PA : Medical Information Science Reference, c2011. – (58.17115/I61a) |
Contents
Contents
Section 1 Method Development and Application in Bioinformatics
Chapter 1 JFeature: A Java Package for Extracting Global Sequence Features from Proteins for Functional Classification 1
Chapter 2 Cross-Platform Microarray Data Integration Combining Meta-Analysis and Gene Set Enrichment Analysis 12
Chapter 3 Chaos Game Representation of Mitochondrial Genomes: Markov Chain Model Simulation and Vertebrate Phylogeny 28
Chapter 4 A Two-Layer Learning Architecture for Multi-Class Protein Folds Classification 39
Chapter 5 Improving PSI-BLAST's Fold Recognition Performance through Combining Consensus Sequences and Support Vector Machine 51
Chapter 6 A New Approach for DNA Sequence Similarity Analysis Based on Triplets of Nucleic Acid Bases 60
Chapter 7 MicroRNA Precursor Prediction Using SVM with RNA Pairing Continuity Feature 73
Chapter 8 Four Long-Chain Acyl-Coenzyme: A Synthetase Genes that Might be Involved in the Biosynthesis of Lipids in Brassica Napus 83
Section 2 Biological Networks and Systems Biology
Chapter 9 Topological Analysis of Axon Guidance Network for Homo Sapiens 93
Chapter 10 Evaluation of Coupled Nuclear and Cytoplasmic p53 Dynamics 103
Chapter 11 Agonist Fluctuation Maintained Calcium Signaling in a Mesoscopic System
Section 3 Computational Predictions of Drug Properties
Chapter 12 Theoretical Study on the Antioxidant Activity of Alizarin， Purpurin， and Pseudopurpurin 130
Chapter 13 Human Oral Bioavailability Prediction of Four Kinds of Drugs 141
Chapter 14 In Silico Prediction of Blood Brain Barrier Permeability: A Support Vector Machine Model 155
Section 4 Medical Signal Processing and Analysis
Chapter 15 The Study of Transesophageal Oxygen Saturation Monitoring 173
Chapter 16 Digital Auscultation System of Traditional Chinese Medicine and its Signals Acquisition: Analysis Methods 183
Chapter 17 Pulse Wave Analysis of Traditional Chinese Medicine Based on Hemodynamics Principles 194
Section 5 Computational Biology
Chapter 18 A New Mechanical Algorithm for Calculating the Amplitude Equation of the Reaction-Diffusion Systems 205
Chapter 19 Pattern Formation Controlled by External Forcing in a Spatial Harvesting Predator-Prey Model 214
Chapter 20 Repetitive Firing and Bursting due to Different Bifurcation Mechanism in Unmyelinated Fibre 222
Chapter 21 The Mathematical Modeling and Computational Simulation for Error-Prone PCR 234
Section 6 Structure and Modeling
Chapter 22 Molecular Dynamics Simulation of Interlayer Structure and Hydration Properties of Glycine Intercalated Layered Double Hydroxides 242
Chapter 23 Structure of Hydrogenase in Biohydrogen Production Anaerobic Bacteria
Section 7 Problems and Solutions in Environmental Sciences
Chapter 24 Seasonal Trade-Off between Water and Nitrogen Use Efficiency of Constructive Plants in Desert Piparian Forest in Hyperarid Region of China 260
Chapter 25 Root Water Uptake Model of Populus Euphratica in Desert Riparian Forest in Extreme Arid Region 276
Chapter 26 The Fuzzy Integrated Energy Prior-Warning Model Based on Entropy Weight
Chapter 27 A Novel Fiowsheet for the Recycling of Valuable Constituents from Waste Printed Circuit Boards 296
Compilation of References 307
About the Contributors 337
Index 356
