Coalescent theory tells us what gene genealogies are expected to look like if populations have different demographic histories - i.e, population size, structure, etc. The aim of this book is to provide an accessible introduction to Coalescent Theory with a view towards data analysis. Coalescent Theory has in the last two decades moved from being an obscure technique that appealed to mathematical population geneticists to a central tool in data analysis of DNA sequences. The completion of the sequencing of the human genome and accompanying determination of SNPs and haplotypes will increase its importance even further. This textbook, rich in examples and illustrations, is suitable for a graduate course in statistics, population-, molecular-, and medical genetics.
`The book succeeds very well in engendering enthusiasm for developing mathematical models and methods which can be applied to DNA sequence data, and it introduces the reader to open research problems.'
The basic coalescent
From genealogies to sequences
Trees and topologies
Extensions to the basic coalescent
The coalescent with recombination
Getting parameters from data
LD Mapping and the coalescent
Appendix: Web based tools