Bioinformatics Research and Applications

Table of Contents

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   Book Overview
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   Chapter 1 Prediction of Time to Tumor Recurrence in Ovarian Cancer: Comparison of Three Sparse Regression Methods
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   Chapter 2 Histopathological Diagnosis for Viable and Non-viable Tumor Prediction for Osteosarcoma Using Convolutional Neural Network
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   Chapter 3 Relating Diseases Based on Disease Module Theory
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   Chapter 4 Reconstructing One-Articulated Networks with Distance Matrices
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   Chapter 5 Computational Methods for the Prediction of Drug-Target Interactions from Drug Fingerprints and Protein Sequences by Stacked Auto-Encoder Deep Neural Network
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   Chapter 6 Analysis of Paired miRNA-mRNA Microarray Expression Data Using a Stepwise Multiple Linear Regression Model
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   Chapter 7 IsoTree: De Novo Transcriptome Assembly from RNA-Seq Reads
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   Chapter 8 Unfolding the Protein Surface for Pattern Matching
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    Chapter 9 Estimation of Rates of Reactions Triggered by Electron Transfer in Top-Down Mass Spectrometry
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    Chapter 10 Construction of Protein Backbone Fragments Libraries on Large Protein Sets Using a Randomized Spectral Clustering Algorithm
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    Chapter 11 Mapping Paratope and Epitope Residues of Antibody Pembrolizumab via Molecular Dynamics Simulation
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    Chapter 12 A New 2-Approximation Algorithm for rSPR Distance
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    Chapter 13 An SIMD Algorithm for Wraparound Tandem Alignment
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    Chapter 14 PhAT-QTL: A Phase-Aware Test for QTL Detection
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    Chapter 15 Unbiased Taxonomic Annotation of Metagenomic Samples
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    Chapter 16 Genetic Algorithm Based Beta-Barrel Detection for Medium Resolution Cryo-EM Density Maps
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    Chapter 17 Mining K-mers of Various Lengths in Biological Sequences
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    Chapter 18 Coestimation of Gene Trees and Reconciliations Under a Duplication-Loss-Coalescence Model
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    Chapter 19 A Median Solver and Phylogenetic Inference Based on DCJ Sorting
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    Chapter 20 Addressing the Threats of Inference Attacks on Traits and Genotypes from Individual Genomic Data
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    Chapter 21 Phylogenetic Tree Reconciliation: Mean Values for Fixed Gene Trees
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    Chapter 22 Computer Assisted Segmentation Tool: A Machine Learning Based Image Segmenting Tool for TrakEM2
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    Chapter 23 Accelerating Electron Tomography Reconstruction Algorithm ICON Using the Intel Xeon Phi Coprocessor on Tianhe-2 Supercomputer
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    Chapter 24 Modeling the Molecular Distance Geometry Problem Using Dihedral Angles
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    Chapter 25 What’s Hot and What’s Not? - Exploring Trends in Bioinformatics Literature Using Topic Modeling and Keyword Analysis
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    Chapter 26 Structure Modeling and Molecular Docking Studies of Schizophrenia Candidate Genes, Synapsins 2 (SYN2) and Trace Amino Acid Receptor (TAAR6)
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    Chapter 27 Accurate Prediction of Haplotype Inference Errors by Feature Extraction
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    Chapter 28 Detecting Change Points in fMRI Data via Bayesian Inference and Genetic Algorithm Model
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    Chapter 29 Extracting Depression Symptoms from Social Networks and Web Blogs via Text Mining
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    Chapter 30 A Probabilistic Approach to Multiple-Instance Learning
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    Chapter 31 Net2Image: A Network Representation Method for Identifying Cancer-Related Genes
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    Chapter 32 Computational Prediction of Influenza Neuraminidase Inhibitors Using Machine Learning Algorithms and Recursive Feature Elimination Method
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    Chapter 33 Differential Privacy Preserving Genomic Data Releasing via Factor Graph
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    Chapter 34 In Silico Simulation of Signal Cascades in Biomedical Networks Based on the Production Rule System
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    Chapter 35 Using the Precision Medicine Analytical Method to Investigate the Impact of the Aerobic Exercise on the Hypertension for the Middle-Aged Women
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    Chapter 36 Understanding Protein-Protein Interface Formation Mechanism in a New Probability Way at Amino Acid Level
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    Chapter 37 Detecting Potential Adverse Drug Reactions Using Association Rules and Embedding Models
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    Chapter 38 Genome-Wide Analysis of Response Regulator Genes in Solanum lycopersicum
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    Chapter 39 A Fully Automatic Geometric Parameters Determining Method for Electron Tomography
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    Chapter 40 Evaluating the Impact of Encoding Schemes on Deep Auto-Encoders for DNA Annotation
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    Chapter 41 Metabolic Analysis of Metatranscriptomic Data from Planktonic Communities
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    Chapter 42 NemoLib: A Java Library for Efficient Network Motif Detection
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    Chapter 43 A Genetic Algorithm for Finding Discriminative Functional Motifs in Long Non-coding RNAs
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    Chapter 44 Heterogeneous Cancer Cell Line Data Fusion for Identifying Novel Response Determinants in Precision Medicine
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    Chapter 45 Agent-Based in Silico Evolution of HCV Quasispecies
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    Chapter 46 Modeling the Spread of HIV and HCV Infections Based on Identification and Characterization of High-Risk Communities Using Social Media