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Integrative analysis of single-cell genomics data by coupled nonnegative matrix factorizations

文献类型：期刊论文

作者Duren, Zhana1,7; Chen, Xi1,7; Zamanighomi, Mahdi1,6,7; Zeng, Wanwen1,4,5,7; Satpathy, Ansuman T.6; Chang, Howard Y.6; Wang, Yong2,3; Wong, Wing Hung1,6,7
刊名PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
出版日期2018-07-24
卷号115期号:30页码:7723-7728
关键词coupled clustering NMF single-cell genomic data
ISSN号0027-8424
DOI10.1073/pnas.1805681115
英文摘要When different types of functional genomics data are generated on single cells from different samples of cells from the same heterogeneous population, the clustering of cells in the different samples should be coupled. We formulate this "coupled clustering" problem as an optimization problem and propose the method of coupled nonnegative matrix factorizations (coupled NMF) for its solution. The method is illustrated by the integrative analysis of single-cell RNA-sequencing (RNA-seq) and single-cell ATAC-sequencing (ATAC-seq) data.
资助项目National Institutes of Health[R01HG007834] ; National Institutes of Health[R01GM109836] ; National Institutes of Health[P50HG007735] ; Strategic Priority Research Program of the Chinese Academy of Sciences[XDB13000000]
WOS研究方向Science & Technology - Other Topics
语种英语
WOS记录号WOS:000439574700050
出版者NATL ACAD SCIENCES
源URL[http://ir.amss.ac.cn/handle/2S8OKBNM/33386]  
专题应用数学研究所
通讯作者Wong, Wing Hung
作者单位1.Stanford Univ, Dept Stat, Stanford, CA 94305 USA
2.Chinese Acad Sci, Acad Math & Syst Sci, Beijing 100080, Peoples R China
3.Chinese Acad Sci, Ctr Excellence Anim Evolut & Genet, Kunming 650223, Yunnan, Peoples R China
4.Tsinghua Univ, Ctr Synthet & Syst Biol, Dept Automat, Beijing 100080, Peoples R China
5.Tsinghua Univ, Key Lab Bioinformat, Bioinformat Div, Minist Educ, Beijing 100080, Peoples R China
6.Stanford Univ, Ctr Personal Dynam Regulomes, Stanford, CA 94305 USA
7.Stanford Univ, Dept Biomed Data Sci, Stanford, CA 94305 USA
推荐引用方式
GB/T 7714		 Duren, Zhana,Chen, Xi,Zamanighomi, Mahdi,et al. Integrative analysis of single-cell genomics data by coupled nonnegative matrix factorizations[J]. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA,2018,115(30):7723-7728.
APA Duren, Zhana.,Chen, Xi.,Zamanighomi, Mahdi.,Zeng, Wanwen.,Satpathy, Ansuman T..,...&Wong, Wing Hung.(2018).Integrative analysis of single-cell genomics data by coupled nonnegative matrix factorizations.PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA,115(30),7723-7728.
MLA Duren, Zhana,et al."Integrative analysis of single-cell genomics data by coupled nonnegative matrix factorizations".PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 115.30(2018):7723-7728.

入库方式： OAI收割

来源：数学与系统科学研究院

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