Frequentist Estimation of Coalescence Times From Nucleotide Sequence Data Using a Tree-Based Partition-Reference-Cited by-同舟云学术

Frequentist Estimation of Coalescence Times From Nucleotide Sequence Data Using a Tree-Based Partition

Published:2002-05-01 Issue:1 Volume:161 Page:447-459
ISSN:1943-2631
Container-title:Genetics
language:en
Short-container-title:

Author:

Tang Hua¹,Siegmund David O¹,Shen Peidong²,Oefner Peter J²,Feldman Marcus W³

Affiliation:

1. Department of Statistics, Stanford Genome Technology Center

2. Stanford Genome Technology Center and

3. Department of Biological Sciences, Stanford University, Stanford, California 94305

Abstract

Abstract This article proposes a method of estimating the time to the most recent common ancestor (TMRCA) of a sample of DNA sequences. The method is based on the molecular clock hypothesis, but avoids assumptions about population structure. Simulations show that in a wide range of situations, the point estimate has small bias and the confidence interval has at least the nominal coverage probability. We discuss conditions that can lead to biased estimates. Performance of this estimator is compared with existing methods based on the coalescence theory. The method is applied to sequences of Y chromosomes and mtDNAs to estimate the coalescent times of human male and female populations.

Publisher

Oxford University Press (OUP)

Subject

Genetics

Link

https://academic.oup.com/genetics/article-pdf/161/1/447/42045979/genetics0447.pdf

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