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Algorithms in Bioinformatics

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Cover of 'Algorithms in Bioinformatics'

Table of Contents

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    Book Overview
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    Chapter 1 Minimum Factorization Agreement of Spliced ESTs
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    Chapter 2 Annotating Fragmentation Patterns
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    Chapter 3 biRNA: Fast RNA-RNA Binding Sites Prediction
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    Chapter 4 Quantifying Systemic Evolutionary Changes by Color Coding Confidence-Scored PPI Networks
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    Chapter 5 PMFastR: A New Approach to Multiple RNA Structure Alignment
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    Chapter 6 On the Upper Bound of the Prediction Accuracy of Residue Contacts in Proteins with Correlated Mutations: The Case Study of the Similarity Matrices
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    Chapter 7 Constructing Majority-Rule Supertrees
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    Chapter 8 SCJ: A Variant of Breakpoint Distance for Which Sorting, Genome Median and Genome Halving Problems Are Easy
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    Chapter 9 A Simple, Practical and Complete $O(\frac{n^3}{ \log n})$ -Time Algorithm for RNA Folding Using the Four-Russians Speedup
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    Chapter 10 Back-Translation for Discovering Distant Protein Homologies
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    Chapter 11 A Markov Classification Model for Metabolic Pathways
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    Chapter 12 Mimosa: Mixture Model of Co-expression to Detect Modulators of Regulatory Interaction
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    Chapter 13 Phylogenetic Comparative Assembly
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    Chapter 14 K-Partite RNA Secondary Structures
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    Chapter 15 Efficient Algorithms for Analyzing Segmental Duplications, Deletions, and Inversions in Genomes
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    Chapter 16 Predicting Gene Structures from Multiple RT-PCR Tests
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    Chapter 17 A Tree Based Method for the Rapid Screening of Chemical Fingerprints
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    Chapter 18 Generalizing the Four Gamete Condition and Splits Equivalence Theorem: Perfect Phylogeny on Three State Characters
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    Chapter 19 Decoding Synteny Blocks and Large-Scale Duplications in Mammalian and Plant Genomes
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    Chapter 20 A General Framework for Local Pairwise Alignment Statistics with Gaps
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    Chapter 21 mpscan: Fast Localisation of Multiple Reads in Genomes
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    Chapter 22 Fast Prediction of RNA-RNA Interaction
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    Chapter 23 FlexSnap: Flexible Non-sequential Protein Structure Alignment
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    Chapter 24 A Non-parametric Bayesian Approach for Predicting RNA Secondary Structures
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    Chapter 25 Exact Score Distribution Computation for Similarity Searches in Ontologies
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    Chapter 26 Linear-Time Protein 3-D Structure Searching with Insertions and Deletions
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    Chapter 27 Visualizing Phylogenetic Treespace Using Cartographic Projections
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    Chapter 28 A Simulation Study Comparing Supertree and Combined Analysis Methods Using SMIDGen
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    Chapter 29 Aligning Biomolecular Networks Using Modular Graph Kernels
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    Chapter 30 MADMX: A Novel Strategy for Maximal Dense Motif Extraction
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    Chapter 31 Large-Scale Neighbor-Joining with NINJA
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    Chapter 32 A Unifying View on Approximation and FPT of Agreement Forests
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    Chapter 33 Structural Alignment of RNA with Complex Pseudoknot Structure
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    Chapter 34 Improving Inference of Transcriptional Regulatory Networks Based on Network Evolutionary Models
Attention for Chapter 21: mpscan: Fast Localisation of Multiple Reads in Genomes
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