Software Tools and Algorithms for Biological Systems

Front Matter....Pages i-xli
Front Matter....Pages 1-1
A Technical Platform for Generating Reproducible Expression Data from Streptomyces coelicolor Batch Cultivations....Pages 3-15
MiRNA Recognition with the yasMiR System: The Quest for Further Improvements....Pages 17-25
Top Scoring Pair Decision Tree for Gene Expression Data Analysis....Pages 27-35
Predictive Minimum Description Length Principle Approach to Inferring Gene Regulatory Networks....Pages 37-43
Parsimonious Selection of Useful Genes in Microarray Gene Expression Data....Pages 45-55
Hierarchical Signature Clustering for Time Series Microarray Data....Pages 57-65
Microarray Database Mining and Cell Differentiation Defects in Schizophrenia....Pages 67-74
miRNA Prediction Using Computational Approach....Pages 75-82
Improving the Accuracy of Gene Expression Profile Classification with Lorenz Curves and Gini Ratios....Pages 83-90
Feature Selection in Gene Expression Data Using Principal Component Analysis and Rough Set Theory....Pages 91-100
Dramatically Reduced Precision in Microarray Analysis Retains Quantitative Properties and Provides Additional Benefits....Pages 101-111
Algebraic Model Checking for Boolean Gene Regulatory Networks....Pages 113-122
Comparative Advantages of Novel Algorithms Using MSR Threshold and MSR Difference Threshold for Biclustering Gene Expression Data....Pages 123-134
Performance Comparison of SLFN Training Algorithms for DNA Microarray Classification....Pages 135-143
Clustering Microarray Data to Determine Normalization Method....Pages 145-153
Front Matter....Pages 155-155
Estimation, Modeling, and Simulation of Patterned Growth in Extreme Environments....Pages 157-170
Performance of Univariate Forecasting on Seasonal Diseases: The Case of Tuberculosis....Pages 171-179
Predicting Individual Affect of Health Interventions to Reduce HPV Prevalence....Pages 181-190
Decision Tree and Ensemble Learning Algorithms with Their Applications in Bioinformatics....Pages 191-199
Pattern Recognition of Surface EMG Biological Signals by Means of Hilbert Spectrum and Fuzzy Clustering....Pages 201-209
Front Matter....Pages 155-155
Rotation of Random Forests for Genomic and Proteomic Classification Problems....Pages 211-221
Improved Prediction of MHC Class I Binders/Non-Binders Peptides Through Artificial Neural Network Using Variable Learning Rate: SARS Corona Virus, a Case Study....Pages 223-229
Front Matter....Pages 231-231
Fast Three-Dimensional Noise Reduction for Real-Time Electron Tomography....Pages 233-242
Prediction of Chemical-Protein Binding Activity Using Contrast Graph Patterns....Pages 243-253
Topological Constraint in High-Density Cells’ Tracking of Image Sequences....Pages 255-262
STRIKE: A Protein–Protein Interaction Classification Approach....Pages 263-270
Cooperativity of Protein Binding to Vesicles....Pages 271-278
The Role of Independent Test Set in Modeling of Protein Folding Kinetics....Pages 279-284
Front Matter....Pages 285-285
Branch-and-Bound Approach for Parsimonious Inference of a Species Tree from a Set of Gene Family Trees....Pages 287-295
Sequence-Specific Sequence Comparison Using Pairwise Statistical Significance....Pages 297-306
Modelling Short Time Series in Metabolomics: A Functional Data Analysis Approach....Pages 307-315
Modeling of Gene Therapy for Regenerative Cells Using Intelligent Agents....Pages 317-325
Biomarkers Discovery in Medical Genomics Data....Pages 327-334
Computer Simulation on Disease Vector Population Replacement Driven by the Maternal Effect Dominant Embryonic Arrest....Pages 335-343
Leukocytes Segmentation Using Markov Random Fields....Pages 345-353
Front Matter....Pages 355-355
Ontology-Based Knowledge Discovery in Pharmacogenomics....Pages 357-366
Enabling Heterogeneous Data Integration and Biomedical Event Prediction Through ICT: The Test Case of Cancer Reoccurrence....Pages 367-375
Complexity and High-End Computing in Biology and Medicine....Pages 377-384
Molecular Modeling Study of Interaction of Anthracenedione Class of Drug Mitoxantrone and Its Analogs with DNA Tetrameric Sequences....Pages 385-400
A Monte Carlo Analysis of Peritoneal Antimicrobial Pharmacokinetics....Pages 401-410
Front Matter....Pages 411-411
Histopathology Tissue Segmentation by Combining Fuzzy Clustering with Multiphase Vector Level Sets....Pages 413-424
A Dynamically Masked Gaussian Can Efficiently Approximate a Distance Calculation for Image Segmentation....Pages 425-432
Automatic and Robust System for Correcting Microarray Images’ Rotations and Isolating Spots....Pages 433-440
Multimodality Medical Image Registration and Fusion Techniques Using Mutual Information and Genetic Algorithm-Based Approaches....Pages 441-449
Microcalcifications Detection Using Fisher’s Linear Discriminant and Breast Density....Pages 451-459
Enhanced Optical Flow Field of Left Ventricular Motion Using Quasi-Gaussian DCT Filter....Pages 461-469
An Efficient Algorithm for Denoising MR and CT Images Using Digital Curvelet Transform....Pages 471-480
On the Use of Collinear and Triangle Equation for Automatic Segmentation and Boundary Detection of Cardiac Cavity Images....Pages 481-488
The Electromagnetic-Trait Imaging Computation of Traveling Wave Method in Breast Tumor Microwave Sensor System....Pages 489-495
Medical Image Processing Using Novel Wavelet Filters Based on Atomic Functions: Optimal Medical Image Compression....Pages 497-504
Cancellation of Artifacts in ECG Signals Using Block Adaptive Filtering Techniques....Pages 505-513
Segmentation of Medical Image Sequence by Parallel Active Contour....Pages 515-522
Computerized Decision Support System for Mass Identification in Breast Using Digital Mammogram: A Study on GA-Based Neuro-Fuzzy Approaches....Pages 523-533
Front Matter....Pages 535-535
Optimization-Based Technique for Separation and Detection of Saccadic Movements and Eye-Blinking in Electrooculography Biosignals....Pages 537-545
A Framework for Lipoprotein Ontology....Pages 547-553
Verbal Decision Analysis Applied on the Optimization of Alzheimer’s Disease Diagnosis: A Case Study Based on Neuroimaging....Pages 555-564
Asynchronous Brain Machine Interface-Based Control of a Wheelchair....Pages 565-572
Toward an Application to Psychological Disorders Diagnosis....Pages 573-580
Enhancing Medical Research Efficiency by Using Concept Maps....Pages 581-588
Analysis of Neural Sources of P300 Event-Related Potential in Normal and Schizophrenic Participants....Pages 589-597
Front Matter....Pages 535-535
Design and Development of a Tele-Healthcare Information System Based on Web Services and HL7 Standards....Pages 599-606
Fuzzy Logic Based Expert System for the Treatment of Mobile Tooth....Pages 607-614
A Microcomputer FES System for Wrist Moving Control....Pages 615-621
Computer-Aided Decision System for the Clubfeet Deformities....Pages 623-635
A Framework for Specifying Safe Behavior of the CIIP Medical System....Pages 637-644
Front Matter....Pages 645-645
Lotka–Volterra System with Volterra Multiplier....Pages 647-655
A Biological Compression Model and Its Applications....Pages 657-666
Open Source Clinical Portals: A Model for Healthcare Information Systems to Support Care Processes and Feed Clinical Research....Pages 667-677
Analysis and Clustering of MicroRNA Array: A New Efficient and Reliable Computational Method....Pages 679-688
Stochastic Simulations of Mixed-Lipid Compartments: From Self-Assembling Vesicles to Self-Producing Protocells....Pages 689-696
A New Genetic Algorithm for Polygonal Approximation....Pages 697-707
Challenges When Using Real-World Bio-data to Calibrate Simulation Systems....Pages 709-716
Credibility of Digital Content in a Healthcare Collaborative Community....Pages 717-724
Using Standardized Numerical Scores for the Display and Interpretation of Biomedical Data....Pages 725-731
ImagCell: A Computer Tool for Cell Culture Image Processing Applications in Bioimpedance Measurements....Pages 733-740
From Ontology Selection and Semantic Web to an Integrated Information System for Food-borne Diseases and Food Safety....Pages 741-750
Algebraic Analysis of Social Networks for Bio-surveillance: The Cases of SARS-Beijing-2003 and AH1N1 Influenza-México-2009....Pages 751-761
Back Matter....Pages 763-778