Phylogenetic Handbook A Practical Approach to Phylogenetic Analysis and Hypothesis Testing

ISBN-10: 0521730716

ISBN-13: 9780521730716

Edition: 2nd 2009

List price: $72.00
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Book details

List price: $72.00
Edition: 2nd
Copyright year: 2009
Publisher: Cambridge University Press
Publication date: 3/26/2009
Binding: Paperback
Pages: 750
Size: 7.00" wide x 9.75" long x 1.25" tall
Weight: 1.364
Language: English

Philippe Lemey is a FWO postdoctoral researcher at the Rega Institute, Katholieke Universiteit Leuven, Belgium, where he completed his PhD in Medical Sciences. He has been an EMBO fellow and a Marie-Curie fellow in the Evolutionary Biology Group at the Department of Zoology, University of Oxford. His research focuses on molecular evolution of viruses by integrating molecular biology and computational approaches.

Marco Salemi is a postdoctoral scientist in the Medical Faculty at the Katholieke Universiteit, Belgium. He currently holds a research position at the University of California, Irvine, where he works on epidemiological virology and phylogenetic analysis, focusing on the molecular epidemiology of human pathogenic viruses, such as HIV and HCV. He is supported by the Fund for Scientific Research - Flanders, Belgium.

Introduction
Basic concepts of molecular evolution Anne-Mieke Vandamme
Data Preparation
Sequence databases and database searching
Multiple sequence alignment Des Higgins and Philippe Lemey
Phylogenetic Inference
Nucleotide substitution models Korbinian Strimmer, Arndt von Haeseler and Marco Salemi
Phylogenetic inference based on distance methods Yves Van de
Phylogenetic inference using maximum likelihood methods
Phylogeny inference based on parsimony and other methods using PAUP*
Phylogenetic analysis using protein sequences
Testing Models and Trees
Selecting models of evolution David Posada
Molecular clock analysis Philippe
Testing tree topologies Heiko Schmidt
Molecular Adaptation
Natural selection and adaptation of molecular sequences
Estimating selection pressures on alignments of coding sequences
Recombination
Introduction to recombination detection Philippe
Detecting and characterizing individual recombination events
Population Genetics
The coalescent: population genetic inference using genealogies Allen Rodrigo
Bayesian evolutionary analysis by sampling trees
LAMARC: estimating population genetic parameters from molecular data
Additional Topics
Assessing substitution saturation with DAMBE
Split networks: a tool for exploring complex evolutionary relationships in molecular data Vincent
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