Length Distribution of Ancestral Tracks under a General Admixture Model and Its Applications in Population History Inference

doi:10.1038/srep20048

	Length Distribution of Ancestral Tracks under a General Admixture Model and Its Applications in Population History Inference
	Ni, Xumin 1; Yang, Xiong 2; Guo, Wei 3; Yuan, Kai 2; Zhou, Ying 2; Ma, Zhiming 1,3; Xu, Shuhua2,4,5
	2016-01-28
发表期刊	SCIENTIFIC REPORTS (IF:3.8[JCR-2023],4.3[5-Year])
ISSN	2045-2322
卷号	6
发表状态	已发表
DOI	10.1038/srep20048
摘要	The length of ancestral tracks decays with the passing of generations which can be used to infer population admixture histories. Previous studies have shown the power in recovering the histories of admixed populations via the length distributions of ancestral tracks even under simple models. We believe that the deduction of length distributions under a general model will greatly elevate the power. Here we first deduced the length distributions under a general model and proposed general principles in parameter estimation and model selection with the deduced length distributions. Next, we focused on studying the length distributions and its applications under three typical special cases. Extensive simulations showed that the length distributions of ancestral tracks were well predicted by our theoretical framework. We further developed a new method, AdmixInfer, based on the length distributions and good performance was observed when it was applied to infer population histories under the three typical models. Notably, our method was insensitive to demographic history, sample size and threshold to discard short tracks. Finally, good performance was also observed when applied to some real datasets of African Americans, Mexicans and South Asian populations from the HapMap project and the Human Genome Diversity Project.
收录类别	SCI
语种	英语
资助项目	Key Laboratory of Random Complex Structures and Data Science, CAS[2008DP173182]
WOS研究方向	Science & Technology - Other Topics
WOS类目	Multidisciplinary Sciences
WOS记录号	WOS:000368786700001
出版者	NATURE PUBLISHING GROUP
WOS关键词	CHROMOSOMAL SEGMENTS ; LIKELIHOOD RATIO ; NEANDERTHAL
原始文献类型	Article
引用统计	正在获取...
文献类型	期刊论文
条目标识符	https://kms.shanghaitech.edu.cn/handle/2MSLDSTB/1937
专题	生命科学与技术学院_特聘教授组_徐书华组
通讯作者	Ma, Zhiming; Xu, Shuhua
作者单位	1.Beijing Jiaotong Univ, Sch Sci, Dept Math, Beijing 100044, Peoples R China 2.Chinese Acad Sci, Key Lab Computat Biol, Max Planck Independent Res Grp Populat Genom, Shanghai Inst Biol Sci,CAS MPG Partner Inst Compu, Shanghai 200031, Peoples R China 3.Chinese Acad Sci, Acad Math & Syst Sci, Inst Appl Math, Beijing 100190, Peoples R China 4.ShanghaiTech Univ, Sch Life Sci & Technol, Shanghai 200031, Peoples R China 5.Collaborat Innovat Ctr Genet & Dev, Shanghai 200438, Peoples R China
通讯作者单位	生命科学与技术学院
推荐引用方式 GB/T 7714	Ni, Xumin,Yang, Xiong,Guo, Wei,et al. Length Distribution of Ancestral Tracks under a General Admixture Model and Its Applications in Population History Inference[J]. SCIENTIFIC REPORTS,2016,6.
APA	Ni, Xumin.,Yang, Xiong.,Guo, Wei.,Yuan, Kai.,Zhou, Ying.,...&Xu, Shuhua.(2016).Length Distribution of Ancestral Tracks under a General Admixture Model and Its Applications in Population History Inference.SCIENTIFIC REPORTS,6.
MLA	Ni, Xumin,et al."Length Distribution of Ancestral Tracks under a General Admixture Model and Its Applications in Population History Inference".SCIENTIFIC REPORTS 6(2016).