KMS Of Academy of mathematics and systems sciences, CAS
| Integrative analysis of single-cell genomics data by coupled nonnegative matrix factorizations | |
Duren, Zhana1,2; Chen, Xi1,2; Zamanighomi, Mahdi1,2,3; Zeng, Wanwen1,2,4,5; Satpathy, Ansuman T.3; Chang, Howard Y.3; Wang, Yong6,7 ; Wong, Wing Hung1,2,3
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| 2018-07-24 | |
| Source Publication | PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
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| ISSN | 0027-8424 |
| Volume | 115Issue:30Pages:7723-7728 |
| Abstract | 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. |
| Keyword | coupled clustering NMF single-cell genomic data |
| DOI | 10.1073/pnas.1805681115 |
| Language | 英语 |
| Funding Project | 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 Research Area | Science & Technology - Other Topics |
| WOS Subject | Multidisciplinary Sciences |
| WOS ID | WOS:000439574700050 |
| Publisher | NATL ACAD SCIENCES |
| Citation statistics | |
| Document Type | 期刊论文 |
| Identifier | http://ir.amss.ac.cn/handle/2S8OKBNM/33386 |
| Collection | 应用数学研究所 |
| Corresponding Author | Wong, Wing Hung |
| Affiliation | 1.Stanford Univ, Dept Stat, Stanford, CA 94305 USA 2.Stanford Univ, Dept Biomed Data Sci, Stanford, CA 94305 USA 3.Stanford Univ, Ctr Personal Dynam Regulomes, Stanford, CA 94305 USA 4.Tsinghua Univ, Key Lab Bioinformat, Bioinformat Div, Minist Educ, Beijing 100080, Peoples R China 5.Tsinghua Univ, Ctr Synthet & Syst Biol, Dept Automat, Beijing 100080, Peoples R China 6.Chinese Acad Sci, Acad Math & Syst Sci, Beijing 100080, Peoples R China 7.Chinese Acad Sci, Ctr Excellence Anim Evolut & Genet, Kunming 650223, Yunnan, Peoples R China |
| Recommended Citation 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. |
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