Table of Contents

Evolutionary Parameters in Sequence Families.- MProfiler: A Profile-Based Method for DNA Motif Discovery.- On Utilizing Optimal and Information Theoretic Syntactic Modeling for Peptide Classification.- Joint Tracking of Cell Morphology and Motion.- Multiclass Microarray Gene Expression Analysis Based on Mutual Dependency Models.- An Efficient Convex Nonnegative Network Component Analysis for Gene Regulatory Network Reconstruction.- Using Higher-Order Dynamic Bayesian Networks to Model Periodic Data from the Circadian Clock of Arabidopsis Thaliana.- Sequential Hierarchical Pattern Clustering.- Syntactic Pattern Recognition Using Finite Inductive Strings.- Evidence-Based Clustering of Reads and Taxonomic Analysis of Metagenomic Data.- Avoiding Spurious Feedback Loops in the Reconstruction of Gene Regulatory Networks with Dynamic Bayesian Networks.- Ligand Electron Density Shape Recognition Using 3D Zernike Descriptors.- Definition of Valid Proteomic Biomarkers: A Bayesian Solution.- Inferring Meta-covariates in Classification.- A Multiobjective Evolutionary Algorithm for Numerical Parameter Space Characterization of Reaction Diffusion Systems.- Knowledge-Guided Docking of WW Domain Proteins and Flexible Ligands.- Distinguishing Regional from Within-Codon Rate Heterogeneity in DNA Sequence Alignments.- A Hybrid Metaheuristic for Biclustering Based on Scatter Search and Genetic Algorithms.- Di-codon Usage for Gene Classification.- Counting Patterns in Degenerated Sequences.- Modelling Stem Cells Lineages with Markov Trees.- Bi-clustering of Gene Expression Data Using Conditional Entropy.- c-GAMMA:Comparative Genome Analysis of Molecular Markers.- Semi-supervised Prediction of Protein Interaction Sentences Exploiting Semantically Encoded Metrics.- Classification of Protein Interaction Sentences via Gaussian Processes.- MCMC Based Bayesian Inference for Modeling Gene Networks.- Efficient Optimal Multi-level Thresholding for Biofilm Image Segmentation.- A Pattern Classification Approach to DNA Microarray Image Segmentation.- Drugs and Drug-Like Compounds: Discriminating Approved Pharmaceuticals from Screening-Library Compounds.- Fast SCOP Classification of Structural Class and Fold Using Secondary Structure Mining in Distance Matrix.- Short Segment Frequency Equalization: A Simple and Effective Alternative Treatment of Background Models in Motif Discovery.- Bayesian Optimization Algorithm for the Non-unique Oligonucleotide Probe Selection Problem.- Microarray Time-Series Data Clustering via Multiple Alignment of Gene Expression Profiles.- Recursive Neural Networks for Undirected Graphs for Learning Molecular Endpoints.- Enhancing the Effectiveness of Fingerprint-Based Virtual Screening: Use of Turbo Similarity Searching and of Fragment Frequencies of Occurrence.- Patterns, Movement and Clinical Diagnosis of Abdominal Adhesions.- Class Prediction from Disparate Biological Data Sources Using an Iterative Multi-Kernel Algorithm.- Cross-Platform Analysis with Binarized Gene Expression Data.