Advances in Computational Biology

Bioinformatics Databases, Data Mining, and Pattern Discovery.- A Classification Method Based on Similarity Measures of Generalized Fuzzy Numbers in Building Expert System for Postoperative Patients.- Efficient Support Vector Machine Method for Survival Prediction with SEER Data.- Searching Maximal Degenerate Motifs Guided by a Compact Suffix Tree.- Exploring Motif Composition of Eukaryotic Promoter Regions.- Large-Scale Analysis of Phylogenetic Search Behavior.- Silicosection and Elucidation of the Plant Circadian Clock Using Bayesian Classifiers and New Genemining Algorithm.- ChemBrowser: A Flexible Framework for Mining Chemical Documents.- Experimental Study of Modified Voting Algorithm for Planted (l,d)-Motif Problem.- Prediction of Severe Sepsis Using SVM Model.- Online Multi-divisive Hierarchical Clustering for On-Body Sensor Data.- On Quality Assurance and Assessment of Biological Datasets and Related Statistics.- Pattern Recognition-Informed Feedback for Nanopore Detector Cheminformatics.- An MLP Neural Network for ECG Noise Removal Based on Kalman Filter.- Discovery of Structural Motifs Using Protein Structural Alphabets and 1D Motif-Finding Methods.- Biological Databases at DNA Data Bank of Japan in the Era of Next-Generation Sequencing Technologies.- Microarray, Gene Expression Analysis, and Gene Regulatory Networks.- Comparison of Microarray Preprocessing Methods.- A Robust Ensemble Classification Method Analysis.- k-NN for the Classification of Human Cancer Samples Using the Gene Expression Profiles.- The Application of Regular Expression-Based Pattern Matching to Profiling the Developmental Factors that Contribute to the Development of the Inner Ear.- Functionally Informative Tag SNP Selection Using a Pareto-Optimal Approach.- KMeans Greedy Search Hybrid Algorithm for Biclustering Gene Expression Data.- Robust Stability Analysis and Design Under Consideration of Multiple Feedback Loops of the Tryptophan Regulatory Network of Escherichia coli.- FM-GA and CM-GA for Gene Microarray Analysis.- Protein Classification & Structure Prediction, and Computational Structural Biology.- Novel Features for Automated Cell Phenotype Image Classification.- A Relational Fuzzy C-Means Algorithm for Detecting Protein Spots in Two-Dimensional Gel Images.- Assigning Probabilities to Mascot Peptide Identification Using Logistic Regression.- Genome-Wide EST Data Mining Approaches to Resolving Incongruence of Molecular Phylogenies.- Building a Parallel Between Structural and Topological Properties.- GNCPro: Navigate Human Genes and Relationships Through Net-Walking.- Small-Scale Modeling Approach and Circuit Wiring of the Unfolded Protein Response in Mammalian Cells.- Random-Walk Mechanism in the Genetic Recombination.- Critical Assessment of Side Chain Conformation Prediction in Modelling of Single Point Amino Acid Mutation.- Temporal Anomaly Detection: An Artificial Immune Approach Based on T Cell Activation, Clonal Size Regulation and Homeostasis.- An Integrated Methodology for Mining Promiscuous Proteins: A Case Study of an Integrative Bioinformatics Approach for Hepatitis C Virus Non-structural 5a Protein.- Enhanced Prediction of Conformational Flexibility and Phosphorylation in Proteins.- Why Are MD Simulated Protein Folding Times Wrong?.- Automatic TEM Image Analysis of Membranes for 2D Crystal Detection.- High Performance Computing Approaches for 3D Reconstruction of Complex Biological Specimens.- Protein Identification Using Receptor Arrays and Mass Spectrometry.- Comparative Sequence, Genome Analysis, Genome Assembly, and Genome Scale Computational Methods.- Assessing Consistency Between Versions of Genotype-Calling Algorithm Birdseed for the Genome-Wide Human SNP Array 6.0 Using HapMap Samples.- An Overview of the BioExtract Server: A Distributed, Web-Based System for Genomic Analysis.- A Deterministic DNA Database Search.- Taxonomic Parsing of Bacteriophages Using Core Genes and In Silico Proteome-Based CGUG and Applications to Small Bacterial Genomes.- Analysis of Gene Translation Using a Communications Theory Approach.- A Fast and Efficient Algorithm for Mapping Short Sequences to a Reference Genome.- Sequence Analysis and Homology Modeling Gallus gallus Glutathione S-transferase (Q08392).- Toward Optimizing the Cache Performance of Suffix Trees for Sequence Analysis Algorithms Suffix Tree Cache Performance Optimization.- Toward a Visualization of DNA Sequences.- A Practical Approach for Computing the Active Site of the Ribonucleoside Hydrolase of E. coli Encoded by rihC.- Drug Design, Drug Screening, and Related Topics.- Addressing the Docking Problem: Finding Similar 3-D Protein Envelopes for Computer-Aided Drug Design.- Simultaneous Pathogen Detection and Antibiotic Resistance Characterization Using SNP-Based Multiplexed Oligonucleotide Ligation-PCR (MOL-PCR).- Specification and Verification of Pharmacokinetic Models.- Dehydron Analysis: Quantifying the Effect of Hydrophobic Groups on the Strength and Stability of Hydrogen Bonds.- Docking to Large Allosteric Binding Sites on Protein Surfaces.- Modeling of ATP-Sensitive Inward Rectifier Potassium Channel 11 and Inhibition Mechanism of the Natural Ligand, Ellagic Acid, Using Molecular Docking.- GPU Acceleration of Dock6’s Amber Scoring Computation.- Computational Methods and Diagnostic Tools in Biomedical.- Discriminative Distance Functions and the Patient Neighborhood Graph for Clinical Decision Support.- A Scalable and Integrative System for Pathway Bioinformatics and Systems Biology.- Registration of In Vivo Fluorescence Endomicroscopy Images Based on Feature Detection.- Kinetic Models for Cancer Imaging.- Using Web and Social Media for Influenza Surveillance.- CodeSlinger: A Case Study in Domain-Driven Interactive Tool Design for Biomedical Coding Scheme Exploration and Use.- DigitalLung: Application of High-Performance Computing to Biological System Simulation.- Consideration of Indices to Evaluate Age-Related Muscle Performance by Using Surface Electromyography.- A Study on Discrete Wavelet-Based Noise Removal from EEG Signals.- Enhancing the Communication Flow Between Alzheimer Patients, Caregivers, and Neuropsychologists.- An Improved 1-D Gel Electrophoresis Image Analysis System.- A Fuzzy Approach for Contrast Enhancement of Mammography Breast Images.- Computational Modeling of a New Thrombectomy Device for the Extraction of Blood Clots.- NEURONSESSIONS: A Web-Based Collaborative Tool to Create Brain Computational Models.- General Topics in Bioinformatics.- Toward Automating an Inference Model on Unstructured Terminologies: OXMIS Case Study.- Semantic Content-Based Recommendations Using Semantic Graphs.- Modeling Membrane Localization: Case Study of a Ras Signaling Model.- A Study on Distributed PACS.- Epileptic EEG: A Comprehensive Study of Nonlinear Behavior.- Computational Energetic Model of Morphogenesis Based on Multi-agent Cellular Potts Model.- Standardizing the Next Generation of Bioinformatics Software Development with BioHDF (HDF5).- Multisensor Smart System on a Chip.- Visual Presentation as a Welcome Alternative to Textual Presentation of Gene Annotation Information.- Automatic FRAP Analysis with Inhomogeneous Fluorescence Distribution and Movement Compensation.- Sorting Circular Permutations by Bounded Transpositions.- Annotating Patents with Medline MeSH Codes via Citation Mapping.- Some New Measures of Entropy, Useful Tools in Biocomputing.- Erratum to: Kinetic Models for Cancer Imaging.- Erratum to: Kinetic Models for Cancer Imaging.