Retrieving Y chromosomal haplogroup trees using GWAS data

CORC > 昆明动物研究所 > 昆明动物研究所 > 遗传资源与进化国家重点实验室 > 分子进化基因组学

	Retrieving Y chromosomal haplogroup trees using GWAS data
	Peng MS 1,2,3; He JD 1,2,4; Wu SF 1,2; Murphy RW 1,7; Yao YG 2,8; Zhang YP[*]1,2,9; Fan L 2,5; Liu J 1,6; Adeola AC 1,6
刊名	EUROPEAN JOURNAL OF HUMAN GENETICS
	2014
卷号	22 期号:8 页码:1046-1050
关键词	Y chromosome Y-SNPs haplogroup phylogeny GWAS Myanmar
通讯作者	zhangyp@mail.kiz.ac.cn
合作状况	其它
英文摘要	Phylogenetically informative Y chromosomal single-nucleotide polymorphisms (Y-SNPs) integrated in DNA chips have not been sufficiently explored in most genome-wide association studies (GWAS). Herein, we introduce a pipeline to retrieve Y-SNP data. We introduce the software YTool (http://mitotool.org/ytool/) to handle conversion, filtering, and annotation of the data. Genome-wide SNP data from populations in Myanmar are used to construct a haplogroup tree for 117 Y chromosomes based on 369 high-confidence Y-SNPs. Parallel genotyping and published resequencing data of Y chromosomes confirm the validity of our pipeline. We apply this strategy to the CEU HapMap data set and construct a haplogroup tree with 107 Y-SNPs from 39 individuals. The retrieved Y-SNPs can discern the parental genetic structure of populations. Given the massive quantity of data from GWAS, this method facilitates future investigations of Y chromosome diversity.
收录类别	SCI
资助信息	This work was also supported, in part, by a Visiting Professorship for Senior International Scientists from the Chinese Academy of Sciences, and manuscript preparation by a Natural Sciences and Engineering Research Council of Canada Discovery Grant A3148 to RWM.
语种	英语
内容类型	期刊论文
源URL	[http://159.226.149.26:8080/handle/152453/9291]
专题	昆明动物研究所_分子进化基因组学昆明动物研究所_动物模型与人类重大疾病机理重点实验室昆明动物研究所_遗传资源与进化国家重点实验室昆明动物研究所_重大疾病机理的遗传学
作者单位	1.State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China 2.KIZ/CUHK Joint Laboratory of Bioresources and Molecular Research in Common Diseases, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China 3.Youth Innovation Promotion Association, Chinese Academy of Sciences, Beijing, China 4.Institute of Clinical and Basic Medical Sciences, First People’s Hospital of Yunnan Province (Affiliated Hospital of Kunming University of Science and Technology), Kunming, China 5.School of Life Sciences, The Chinese University of Hong Kong, Shatin, Hong Kong Special Administrative Region, China 6.Kunming College of Life Science, University of Chinese Academy of Sciences, Kunming, China 7.Centre for Biodiversity and Conservation Biology, Royal Ontario Museum, Toronto, Canada 8.Key Laboratory of Animal Models and Human Disease Mechanisms, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China 9.Laboratory for Conservation and Utilization of Bio-Resources & Key Laboratory for Microbial Resources of the Ministry of Education, Yunnan University, Kunming, China
推荐引用方式 GB/T 7714	Peng MS,He JD,Wu SF,et al. Retrieving Y chromosomal haplogroup trees using GWAS data[J]. EUROPEAN JOURNAL OF HUMAN GENETICS,2014,22(8):1046-1050.
APA	Peng MS.,He JD.,Wu SF.,Murphy RW.,Yao YG.,...&Adeola AC.(2014).Retrieving Y chromosomal haplogroup trees using GWAS data.EUROPEAN JOURNAL OF HUMAN GENETICS,22(8),1046-1050.
MLA	Peng MS,et al."Retrieving Y chromosomal haplogroup trees using GWAS data".EUROPEAN JOURNAL OF HUMAN GENETICS 22.8(2014):1046-1050.