Models and Algorithms for Genome Evolution

✍ Scribed by Gene Myers (auth.), Cedric Chauve, Nadia El-Mabrouk, Eric Tannier (eds.)

• Publisher: Springer-Verlag London
• Year: 2013
• Tongue: English
• Leaves: 329
• Series: Computational Biology 19
• Edition: 1
• Category: Library

✦ Synopsis

This authoritative text/reference presents a review of the history, current status, and potential future directions of computational biology in molecular evolution. Gathering together the unique insights of an international selection of prestigious researchers, this must-read volume examines the latest developments in the field, the challenges that remain, and the new avenues emerging from the growing influx of sequence data. These viewpoints build upon the pioneering work of David Sankoff, one of the founding fathers of computational biology, and mark the 50^th anniversary of his first scientific article. The broad spectrum of rich contributions in this essential collection will appeal to all computer scientists, mathematicians and biologists involved in comparative genomics, phylogenetics and related areas.

✦ Table of Contents

Front Matter....Pages I-XII
Front Matter....Pages 1-1
What’s Behind Blast....Pages 3-15
Forty Years of Model-Based Phylogeography....Pages 17-28
How to Infer Ancestral Genome Features by Parsimony: Dynamic Programming over an Evolutionary Tree....Pages 29-45
Duplication, Rearrangement and Reconciliation: A Follow-Up 13 Years Later....Pages 47-62
The Genesis of the DCJ Formula....Pages 63-81
Front Matter....Pages 83-83
Large-Scale Multiple Sequence Alignment and Phylogeny Estimation....Pages 85-146
Rearrangements in Phylogenetic Inference: Compare, Model, or Encode?....Pages 147-171
Status of Research on Insertion and Deletion Variations in the Human Population....Pages 173-181
A Retrospective on Genomic Preprocessing for Comparative Genomics....Pages 183-206
The Emperor Has No Caps! A Comparison of DCJ and Algebraic Distances....Pages 207-243
Front Matter....Pages 245-245
Fractionation, Rearrangement, Consolidation, Reconstruction....Pages 247-260
Error Detection and Correction of Gene Trees....Pages 261-285
The Potential of Family-Free Genome Comparison....Pages 287-307
Genetic History of Populations: Limits to Inference....Pages 309-323
Back Matter....Pages 325-328

✦ Subjects

Computational Biology/Bioinformatics; Mathematical and Computational Biology; Bioinformatics; Mathematics of Computing