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中国科学院数学与系统科学研究院机构知识库
KMS Of Academy of mathematics and systems sciences, CAS
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MIMIC: an optimization method to identify cell type-specific marker panel for cell sorting
期刊论文
BRIEFINGS IN BIOINFORMATICS, 2021, 卷号: 22, 期号: 6, 页码: 14
Authors:
Zou, Meng
;
Duren, Zhana
;
Yuan, Qiuyue
;
Li, Henry
;
Hutchins, Andrew Paul
;
Wong, Wing Hung
;
Wang, Yong
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  |  
View/Download:88/0
  |  
Submit date:2022/04/02
cell type-specific marker
TFs
surface markers
dimension reduction
hierarchical topology
hReg-CNCC reconstructs a regulatory network in human cranial neural crest cells and annotates variants in a developmental context
期刊论文
COMMUNICATIONS BIOLOGY, 2021, 卷号: 4, 期号: 1, 页码: 16
Authors:
Feng, Zhanying
;
Duren, Zhana
;
Xiong, Ziyi
;
Wang, Sijia
;
Liu, Fan
;
Wong, Wing Hung
;
Wang, Yong
Favorite
  |  
View/Download:121/0
  |  
Submit date:2021/06/01
Chromatin accessibility landscape and regulatory network of high-altitude hypoxia adaptation
期刊论文
NATURE COMMUNICATIONS, 2020, 卷号: 11, 期号: 1, 页码: 20
Authors:
Xin, Jingxue
;
Zhang, Hui
;
He, Yaoxi
;
Duren, Zhana
;
Bai, Caijuan
;
Chen, Lang
;
Luo, Xin
;
Yan, Dong-Sheng
;
Zhang, Chaoyu
;
Zhu, Xiang
;
Yuan, Qiuyue
;
Feng, Zhanying
;
Cui, Chaoying
;
Qi, Xuebin
;
Ouzhuluobu
;
Wong, Wing Hung
;
Wang, Yong
;
Su, Bing
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  |  
View/Download:111/0
  |  
Submit date:2021/01/14
Time course regulatory analysis based on paired expression and chromatin accessibility data
期刊论文
GENOME RESEARCH, 2020, 卷号: 30, 期号: 4, 页码: 622-634
Authors:
Duren, Zhana
;
Chen, Xi
;
Xin, Jingxue
;
Wang, Yong
;
Wong, Wing Hung
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View/Download:142/0
  |  
Submit date:2020/06/30
DC3 is a method for deconvolution and coupled clustering from bulk and single-cell genomics data
期刊论文
NATURE COMMUNICATIONS, 2019, 卷号: 10, 页码: 11
Authors:
Zeng, Wanwen
;
Chen, Xi
;
Duren, Zhana
;
Wang, Yong
;
Jiang, Rui
;
Wong, Wing Hung
Favorite
  |  
View/Download:147/0
  |  
Submit date:2020/01/10
Integrative analysis of single-cell genomics data by coupled nonnegative matrix factorizations
期刊论文
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2018, 卷号: 115, 期号: 30, 页码: 7723-7728
Authors:
Duren, Zhana
;
Chen, Xi
;
Zamanighomi, Mahdi
;
Zeng, Wanwen
;
Satpathy, Ansuman T.
;
Chang, Howard Y.
;
Wang, Yong
;
Wong, Wing Hung
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  |  
View/Download:152/0
  |  
Submit date:2019/12/13
coupled clustering
NMF
single-cell genomic data
Modeling gene regulation from paired expression and chromatin accessibility data
期刊论文
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2017, 卷号: 114, 期号: 25, 页码: E4914-E4923
Authors:
Duren, Zhana
;
Chen, Xi
;
Jiang, Rui
;
Wang, Yong
;
Wong, Wing Hung
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  |  
View/Download:127/0
  |  
Submit date:2018/07/30
gene regulation
transcription factor
regulatory element
chromatin regulator
chromatin activity
Predicting transcription factor binding motifs from DNA-binding domains, chromatin accessibility and gene expression data
期刊论文
NUCLEIC ACIDS RESEARCH, 2017, 卷号: 45, 期号: 10, 页码: 5666-5677
Authors:
Zamanighomi, Mahdi
;
Lin, Zhixiang
;
Wang, Yong
;
Jiang, Rui
;
Wong, Wing Hung
Favorite
  |  
View/Download:114/0
  |  
Submit date:2018/07/30
Simultaneous dimension reduction and adjustment for confounding variation
期刊论文
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2016, 卷号: 113, 期号: 51, 页码: 14662-14667
Authors:
Lin, Zhixiang
;
Yang, Can
;
Zhu, Ying
;
Duchi, John
;
Fu, Yao
;
Wang, Yong
;
Jiang, Bai
;
Zamanighomi, Mahdi
;
Xu, Xuming
;
Li, Mingfeng
;
Sestan, Nenad
;
Zhao, Hongyu
;
Wong, Wing Hung
Favorite
  |  
View/Download:96/0
  |  
Submit date:2018/07/30
dimension reduction
confounding variation
transcriptome
Modeling the causal regulatory network by integrating chromatin accessibility and transcriptome data
期刊论文
NATIONAL SCIENCE REVIEW, 2016, 卷号: 3, 期号: 2, 页码: 240-251
Authors:
Wang, Yong
;
Jiang, Rui
;
Wong, Wing Hung
Favorite
  |  
View/Download:90/0
  |  
Submit date:2018/07/30
gene regulatory network
open chromatin
DNA accessibility
transcription factor colocalization
statistical model
data integration