Detecting positive selection with allele frequency information

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Table of contents

Acknowledgements
Summary
Résumé en langue française de la thèse
Introduction
Objectifs de la thèse
Résumé des résultats
Introduction
Chapter 1: Principles of population genetics
What are genes and how are they inherited?
Genes and populations: the concept of effective population size
The Hardy-Weinberg equilibrium model
Evolutionary forces
Modelling genes within populations
Chapter 2: Modelling and detecting positive selection
The classic sweep model
The soft sweep model
Detecting positive selection with allele frequency information
Detecting positive selection with haplotype information
Detecting positive selection: caveats and confounders
Chapter 3: Modelling and detecting admixture
The single pulse admixture model
Assessing admixture with allele frequency information (I)
Assessing admixture with allele frequency information (II)
Assessing admixture with haplotype information
Assessing admixture: towards more complex models
Chapter 4: Gene flow according to evolutionary biology
A barrier to speciation
A potential source of deleterious variation
A potential source of beneficial variation
Chapter 5: Admixture according to molecular anthropology
Initial studies in admixed populations
The ancient DNA revolution: admixture with archaic hominins
The ancient DNA revolution: admixture is everywhere
Adaptive admixture in modern humans
Chapter 6: Objectives of the thesis
Chapter 7: Results
Chapter 8: Discussion
Implications of the presented work: simulation analyses
Implications of the presented work: empirical data
Limitations of the presented work
Perspectives and future directions
References