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Contents
Contents
Sharing of Very Short IBD Segments between Humans, Neandertals, and Denisovans
Sepp Hochreiter
Institute of Bioinformatics, Johannes Kepler University, Linz, Austria
Contents
List of Figures
List of Tables
Introduction
Overview of the Results
Identity By Descent
HapFABIA
Summary of the Results of IBD Segment Detection in Chr. 1 of the 1000Genomes Data
The 1000Genomes Data
Summary Statistics of the Detected Short IBD Segments
Biological Functions of the Detected Short IBD Segments
Sharing of IBD Segments Between Populations and Genomes
Sharing of IBD Segments Between Human Populations
Sharing Between All Human Populations
Sharing of IBD Segments Between Continental Groups
Sharing of IBD Segments Between Human and Ancient Genomes
IBD Sharing between Human Populations and Archaic Genomes
Densities of Population Proportions and Archaic Genomes
Analyses of Lengths of IBD Segments
Relating the IBD Length to Years from Present
Exponential Distributed IBD Lengths
Correction for the Assumptions of IBD Length Distributions
Correction of the Length-Year Relation For Archaic Genomes
Length Correction for IBD with Archaic Genomes
Histograms of Lengths for the Different Genomes
IBD Segment Lengths of Human Populations
Lengths of IBD Segments that Match the Denisova or Neandertal Genome
Lengths of IBD Segments that Match the Denisova Genome
Lengths of IBD Segments that Match the Neandertal Genome
Lengths of IBD Segments that Match Neandertal & Denisova
Examples of IBD Segments that Match Archaic Genomes
How Many Individuals Share an IBD Segment?
Small Likelihood of Identity by State: Small MAF vs. Many Individuals
Population Groups of the 1000 Genomes Project
Are Rare Variants Recent or Old?
Some Rare Variants are Recent and Some Old
Old SNVs Have Been Reported in Other Publications
Bibliography
About this document ...
Sepp Hochreiter 2013-11-13
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