2017/10/27 by Jacqueline Kane, Kane, Jacqueline, Joseph Rusinko +3
Biochemistry, Genetics and Molecular Biology · #Genetic Mapping and Diversity in Plants and Animals #Genomics and Phylogenetic Studies #Genetic diversity and population structure
paper · pdf · doi:10.48550/arxiv.1710.10326
Recently, much attention has been given to understanding recombination events along a chromosome in a variety of field. For instance, many population genetics problems are limited by the inaccuracy of inferred evolutionary histories of chromosomes sampled randomly from a population. This evolutionary history differs among genomic locations as an artifact of recombination events along a chromosome. Thus, much recent attention has been focused on identifying these recombination points. However, many proposed methods either make simplifying, but unrealistic, assumptions about recombination along a chromosome, or are unable to scale to large genome-wide data like what has become commonplace in statistical genetics. Here, we introduce a phylogenetic derivative to describe the relatedness of neighboring trees along a chromosome. This phylogenetic derivative is a computationally efficient, flexible metric that can be also be used assess the prevalence of recombination across a chromosome. These proposed methods are tested and perform well in analyzing both simulated data and a real mouse data set.