Note: Title -- Preface -- Special Guest Message for the 150th Anniversary of Italian Unification -- Organization -- Table of Contents -- Invited Lectures -- Modelling the Effect of Genes on the Dynamics of Probabilistic Spiking Neural Networks for Computational Neurogenetic Modelling -- Introduction -- Probabilistic Neural Models -- Modelling the Effect of Gene Dynamics on the Spiking Dynamics of a pSNN for a pCNGM -- Conclusion and Further Research -- References -- Biostatistics Meets Bioinformatics in Integrating Information from Highdimensional Heterogeneous Genomic Data: Two Examples from Rare Genetic Diseases and Infectious Diseases -- Introduction -- Statistics and Bioinformatics in Gene Therapy Frameworks -- Statistics and Bioinformatics in High Incidence Infectious Diseases: An Application to Mycobacterium Tubercolosis -- Methods -- sRNA Candidates Definition -- Candidates sRNA Encoding Region -- Final Comments -- References -- Statistical Learning -- Bayesian Models for the Multi-sample Time-Course Microarray Experiments -- Introduction -- Statistical Modeling, Estimation and Classification of Gene Expression Profiles -- The Data Structure -- Modeling the Gene Expression Profiles -- Modeling the Errors -- Estimation of Gene-Dependent Parameters -- Identification and Classification of Genes -- Evaluation of Class Probabilities -- Identification and Classification of Differentially Expressed Genes -- Estimation of Gene Expression Profiles -- Estimation of Global Parameters and Prior Hyperparameters -- Algorithm -- Simulations Results and Discussion -- References -- A Machine Learning Pipeline for Discriminant Pathways Identification -- Introduction -- Methods -- The Pipeline -- Experimental Setup for the Examples -- Data Description -- Results -- Air Pollution Experiment -- Parkinson Disease Experiment -- Conclusions -- References. , Discovering Hidden Pathways in Bioinformatics -- Introduction -- Materials and Methods -- Data -- Existing Methods -- Proposed Method -- Experimental Results -- Discussion and Conclusions -- References -- Genomics -- Reliability of miRNA Microarray Platforms: An Approach Based on Random Effects Linear Models -- Introduction -- Materials and Methods -- Results -- Experimental Data Description -- Model Estimation -- Validation -- Discussion -- Conclusions -- References -- A Bioinformatics Procedure to Identify and Annotate Somatic Mutations in Whole-Exome Sequencing Data -- Introduction -- Materials and Methods -- Results -- Discussion and Conclusion -- References -- Computational Intelligence for Health at the Edge -- Feature Selection for the Prediction and Visualization of Brain Tumor Types Using Proton Magnetic Resonance Spectroscopy Data -- Introduction -- Literature Review -- Class-Separability Feature Selection -- A Criterion for Class-Separability -- Experimental Work -- Datasets -- Experimental Settings -- Discussion of the Results -- Data Visualization -- Metabolic Interpretation -- The Effect of Redundancy in Class Separability -- Conclusions -- References -- On the Use of Graphical Models to Study ICU Outcome Prediction in Septic Patients Treated with Statins -- Introduction -- Materials -- Methods -- Statistic Algebraic Models -- Models of Conditional Independence -- Bayesian Networks -- Results -- Marginal Dependence between the Pre-admission Use of Statins and the ICU Outcome -- Study of the Protective Effect of Pre-admission Use of Statins with Bayesian Networks -- Conclusions -- References -- Integration of Biomolecular Interaction Data in a Genomic and Proteomic Data Warehouse to Support Biomedical Knowledge Discovery -- Introduction -- Related Work -- Genomic and Proteomic Data Warehouse (GPDW) -- Data Import Procedures of GPDW. , Data Integration Procedures of GPDW -- Generalization of Metadata -- GPDW Data Schema and Queries -- Quality Controls of Integrated Data -- Integrated Biomolecular Interaction Data -- Conceptual and Logical Analysis -- XML Design of Molecular Interaction Data -- Integration Results and Analysis -- Conclusions -- References -- Proteomics -- Machine-Learning Methods to Predict Protein Interaction Sites in Folded Proteins -- Introduction -- Dataset -- Definition of Protein Surface, Interaction Contacts and Patches -- ISPRED2 Implementation -- Measures of Accuracy -- ISPRED2 at Work -- The Effect of the Definition of Interaction Patches -- Comparison with Other Method -- Conclusions -- References -- Complementing Kernel-Based Visualization of Protein Sequences with Their Phylogenetic Tree -- Introduction -- Proteins and Pharmacology -- Materials and Methods -- Kernel Generative Topographic Mapping -- The GPCR Data -- Phylogenetic Trees -- Results and Discussion -- Conclusions -- References -- DEEN: A Simple and Fast Algorithm for Network Community Detection -- Introduction -- The Algorithm -- DEEN: Delete Edges and Expand Nodes -- Delete Edges. -- Expand Nodes. -- Time Complexity. -- Related Work -- Experimental Evaluation -- Benchmark Networks -- The Karate Club Network. -- The US College Football Network. -- Protein Complex Detection in the Budding Yeast PPI Network -- Assignment of Annotation and p-values to Clusters. -- Results. -- Comparison with MCL. -- Conclusion -- References -- Intelligent Clinical Decision Support Systems(i-CDSS) -- Self-similarity in Physiological Time Series:New Perspectives from the Temporal Spectrum of Scale Exponents -- Introduction -- DFA and the Temporal Spectrum of Scale Exponents -- DFA Temporal Spectrum of Physiological Time Series -- Temporal Spectrum of EEG -- Temporal Spectrum of Cardiovascular Signals. , Discussion and Conclusions -- References -- Support Vector Machines for Survival Regression -- Introduction -- Survival Analysis as Quantile Regression -- Loss Function -- Censored Loss Function -- Theoretical Analysis -- Bounds on the Quantile Risk -- Bounds on the Quantile Property -- Optimisation of the Risk Functional -- Dual Optimisation -- Monotonicity Constraints -- Experiments -- Simulated Data -- German Breast Cancer Study Group 2 -- Conclusions -- References -- Boosted C5 Trees i-Biomarkers Panel for Invasive Bladder Cancer Progression Prediction -- Introduction -- Methods -- Data Preprocessing -- i-Biomarker Development Using C5 Decision Trees -- Results and Discussions -- Samples Data -- i-Biomarkers Development -- Panel of i-Biomarkers Using the KDD Set: -- Single i-Biomarker Using the KM Set: -- Conclusion -- References -- Bioinformatics -- A Faster Algorithm for Motif Finding in Sequences from ChIP-Seq Data -- Introduction -- The Problem -- The Algorithm -- Experimental Evaluation -- Conclusions -- References -- Case/Control Prediction from Illumina Methylation Microarray's β and Two-Color Channels in the Presence of Batch Effects -- Introduction -- Methods -- Results -- Discussion -- Conclusion -- References -- Supporting the Design, Communication and Management of Bioinformatic Protocols through the Leaf Tool -- Introduction -- Formalizing Bioinformatic Protocols -- Resources and Processors -- Protocols as Annnotated Directed Graphs -- The ``Leaf'' System -- The Leaf Graph Language -- The Leaf Protocol Engine -- A Real Application Example -- Conclusions -- References -- Data Clustering -- Genomic Annotation Prediction Based on Integrated Information -- Introduction. -- Data Warehousing and Information Integration -- Genomic and Proteomic Data Warehouse -- Information and Data Integration Approach -- Computational Methods. , Prediction of Biomolecular Annotations -- SVD - Singular Value Decomposition -- SIM - Semantic IMprovement -- Results -- Software Infrastructure and Performances -- ACML and SVDLIBC -- Performances -- Conclusions -- References -- Solving Biclustering with a GRASP-Like Metaheuristic: Two Case-Studies on Gene Expression Analysis -- Introduction -- Problem Formulation -- GRASP -- A Reactive GRASP-Like Algorithm for Biclustering -- Experimental Results and Biological Significance -- References -- Author Index.