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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 Extending the Reach of Phylogenetic Inference
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    Chapter 2 Protein (Multi-)Location Prediction: Using Location Inter-dependencies in a Probabilistic Framework
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    Chapter 3 Towards Reliable Automatic Protein Structure Alignment
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    Chapter 4 A Minimum-Labeling Approach for Reconstructing Protein Networks across Multiple Conditions
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    Chapter 5 Faster Mass Decomposition
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    Chapter 6 On NP-Hardness of the Paired de Bruijn Sound Cycle Problem
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    Chapter 7 Accurate Decoding of Pooled Sequenced Data Using Compressed Sensing
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    Chapter 8 A Novel Combinatorial Method for Estimating Transcript Expression with RNA-Seq: Bounding the Number of Paths
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    Chapter 9 A Polynomial Delay Algorithm for the Enumeration of Bubbles with Length Constraints in Directed Graphs and Its Application to the Detection of Alternative Splicing in RNA-seq Data
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    Chapter 10 Distribution of Graph-Distances in Boltzmann Ensembles of RNA Secondary Structures
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    Chapter 11 Faster Algorithms for RNA-Folding Using the Four-Russians Method
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    Chapter 12 Algorithms for the Majority Rule (+) Consensus Tree and the Frequency Difference Consensus Tree
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    Chapter 13 The Generalized Robinson-Foulds Metric
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    Chapter 14 Computing the Skewness of the Phylogenetic Mean Pairwise Distance in Linear Time
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    Chapter 15 Characterizing Compatibility and Agreement of Unrooted Trees via Cuts in Graphs
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    Chapter 16 Unifying Parsimonious Tree Reconciliation
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    Chapter 17 Sibelia: A Scalable and Comprehensive Synteny Block Generation Tool for Closely Related Microbial Genomes
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    Chapter 18 On the Matrix Median Problem
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    Chapter 19 A Fixed-Parameter Algorithm for Minimum Common String Partition with Few Duplications
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    Chapter 20 MSARC: Multiple Sequence Alignment by Residue Clustering
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    Chapter 21 Mutual Enrichment in Ranked Lists and the Statistical Assessment of Position Weight Matrix Motifs
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    Chapter 22 Probabilistic Approaches to Alignment with Tandem Repeats
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    Chapter 23 Multiscale Identification of Topological Domains in Chromatin
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    Chapter 24 Modeling Intratumor Gene Copy Number Heterogeneity Using Fluorescence in Situ Hybridization Data
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    Chapter 25 Phylogenetic Analysis of Cell Types Using Histone Modifications
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    Chapter 26 Detecting Superbubbles in Assembly Graphs
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    Chapter 27 Cerulean: A Hybrid Assembly Using High Throughput Short and Long Reads
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    Chapter 28 Using Cascading Bloom Filters to Improve the Memory Usage for de Brujin Graphs
Attention for Chapter 19: A Fixed-Parameter Algorithm for Minimum Common String Partition with Few Duplications
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Chapter title
A Fixed-Parameter Algorithm for Minimum Common String Partition with Few Duplications
Chapter number 19
Book title
Algorithms in Bioinformatics
Published by
Springer Berlin Heidelberg, January 2013
DOI 10.1007/978-3-642-40453-5_19
Book ISBNs
978-3-64-240452-8, 978-3-64-240453-5

Laurent Bulteau, Guillaume Fertin, Christian Komusiewicz, Irena Rusu


Aaron Darling, Jens Stoye

Mendeley readers

The data shown below were compiled from readership statistics for 7 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United States 1 14%
Unknown 6 86%

Demographic breakdown

Readers by professional status Count As %
Researcher 5 71%
Student > Doctoral Student 1 14%
Professor 1 14%
Readers by discipline Count As %
Computer Science 7 100%