Models of global gene expression define major domains of cell type and tissue identity

doi:10.1093/nar/gkx054

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	Models of global gene expression define major domains of cell type and tissue identity
	Hutchins, Andrew P.1,2,3; Yang, Zhongzhou 2,3; Li, Yuhao 1; He, Fangfang 1; Fu, Xiuling 1; Wang, Xiaoshan 2,3; Li, Dongwei 2,3; Liu, Kairong 4,5; He, Jiangping 2,3; Wang, Yong4 ; Chen, Jiekai 2,3; Esteban, Miguel A.2,3,6; Pei, Duanqing 2,3
	2017-03-17
发表期刊	NUCLEIC ACIDS RESEARCH
ISSN	0305-1048
卷号	45 期号:5 页码:2354-2367
摘要	The current classification of cells in an organism is largely based on their anatomic and developmental origin. Cells types and tissues are traditionally classified into those that arise from the three embryonic germ layers, the ectoderm, mesoderm and endoderm, but this model does not take into account the organization of cell type-specific patterns of gene expression. Here, we present computational models for cell type and tissue specification derived from a collection of 921 RNA-sequencing samples from 272 distinct mouse cell types or tissues. In an unbiased fashion, this analysis accurately predicts the three known germ layers. Unexpectedly, this analysis also suggests that in total there are eight major domains of cell type-specification, corresponding to the neurectoderm, neural crest, surface ectoderm, endoderm, mesoderm, blood mesoderm, germ cells and the embryonic domain. Further, we identify putative genes responsible for specifying the domain and the cell type. This model has implications for understanding trans-lineage differentiation for stem cells, developmental cell biology and regenerative medicine.
DOI	10.1093/nar/gkx054
语种	英语
资助项目	National Natural Science Foundation of China[31471242] ; National Natural Science Foundation of China[31550110206] ; National Natural Science Foundation of China[11422108] ; NSFC grants ; core Shenzhen funding
WOS研究方向	Biochemistry & Molecular Biology
WOS类目	Biochemistry & Molecular Biology
WOS记录号	WOS:000397286600020
出版者	OXFORD UNIV PRESS
引用统计
文献类型	期刊论文
条目标识符	http://ir.amss.ac.cn/handle/2S8OKBNM/24915
专题	应用数学研究所
通讯作者	Hutchins, Andrew P.; Pei, Duanqing
作者单位	1.Southern Univ Sci & Technol China, Dept Biol, Shenzhen 518055, Guangdong, Peoples R China 2.Chinese Acad Sci, Key Lab Regenerat Biol, Guangzhou 510530, Guangdong, Peoples R China 3.Chinese Acad Sci, Guangzhou Inst Biomed & Hlth, Guangdong Prov Key Lab Stem Cells & Regenerat Med, Guangzhou 510530, Guangdong, Peoples R China 4.Chinese Acad Sci, Acad Math & Syst Sci, Natl Ctr Math & Interdisciplinary Sci, Beijing 100080, Peoples R China 5.Beihang Univ, Beijing 100191, Peoples R China 6.Chinese Acad Sci, Guangzhou Inst Biomed & Hlth, Lab RNA Chromatin & Human Dis, Guangzhou 510530, Guangdong, Peoples R China
推荐引用方式 GB/T 7714	Hutchins, Andrew P.,Yang, Zhongzhou,Li, Yuhao,et al. Models of global gene expression define major domains of cell type and tissue identity[J]. NUCLEIC ACIDS RESEARCH,2017,45(5):2354-2367.
APA	Hutchins, Andrew P..,Yang, Zhongzhou.,Li, Yuhao.,He, Fangfang.,Fu, Xiuling.,...&Pei, Duanqing.(2017).Models of global gene expression define major domains of cell type and tissue identity.NUCLEIC ACIDS RESEARCH,45(5),2354-2367.
MLA	Hutchins, Andrew P.,et al."Models of global gene expression define major domains of cell type and tissue identity".NUCLEIC ACIDS RESEARCH 45.5(2017):2354-2367.