Bioinformatics Research and Applications

Table of Contents

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   Book Overview
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   Chapter 1 Trie-based Apriori Motif Discovery Approach
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   Chapter 2 Inapproximability of (1,2)-Exemplar Distance
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   Chapter 3 A Mixed Integer Programming Model for the Parsimonious Loss of Heterozygosity Problem
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   Chapter 4 Reconstruction of Transcription Regulatory Networks by Stability-Based Network Component Analysis
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   Chapter 5 A Transcript Perspective on Evolution
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   Chapter 6 A Fast Algorithm for Computing the Quartet Distance for Large Sets of Evolutionary Trees
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   Chapter 7 Error Propagation in Sparse Linear Systems with Peptide-Protein Incidence Matrices
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   Chapter 8 Models and Algorithmic Tools for Computational Processes in Cellular Biology: Recent Developments and Future Directions
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    Chapter 9 Identifying Rogue Taxa through Reduced Consensus: NP-Hardness and Exact Algorithms
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    Chapter 10 Analytics Approaches for the Era of 10,000* Genomes *and Counting
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    Chapter 11 GTP Supertrees from Unrooted Gene Trees: Linear Time Algorithms for NNI Based Local Searches
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    Chapter 12 A Robinson-Foulds Measure to Compare Unrooted Trees with Rooted Trees
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    Chapter 13 P-Binder: A System for the Protein-Protein Binding Sites Identification
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    Chapter 14 Non-identifiable Pedigrees and a Bayesian Solution
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    Chapter 15 Iterative Piecewise Linear Regression to Accurately Assess Statistical Significance in Batch Confounded Differential Expression Analysis
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    Chapter 16 Reconstruction of Network Evolutionary History from Extant Network Topology and Duplication History
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    Chapter 17 POPE: Pipeline of Parentally-Biased Expression
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    Chapter 18 On Optimizing the Non-metric Similarity Search in Tandem Mass Spectra by Clustering
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    Chapter 19 On the Comparison of Sets of Alternative Transcripts
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    Chapter 20 MURPAR: A Fast Heuristic for Inferring Parsimonious Phylogenetic Networks from Multiple Gene Trees
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    Chapter 21 Large Scale Ranking and Repositioning of Drugs with Respect to DrugBank Therapeutic Categories
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    Chapter 22 Score Based Aggregation of microRNA Target Orderings
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    Chapter 23 Modeling Complex Diseases Using Discriminative Network Fragments
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    Chapter 24 Novel Multi-sample Scheme for Inferring Phylogenetic Markers from Whole Genome Tumor Profiles
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    Chapter 25 Algorithms for Knowledge-Enhanced Supertrees
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    Chapter 26 Improvement of BLASTp on the FPGA-Based High-Performance Computer RIVYERA
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    Chapter 27 A Polynomial Time Solution for Protein Chain Pair Simplification under the Discrete Fréchet Distance
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    Chapter 28 Designing RNA Secondary Structures in Coding Regions
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    Chapter 29 Phylogenetic Tree Reconstruction with Protein Linkage
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    Chapter 30 Protein Structure Prediction and Clustering Using MUFOLD
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    Chapter 31 Computational Modeling of Mammalian Promoters