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Joint reconstruction of cis-regulatory interaction networks across multiple tissues using single-cell chromatin accessibility data 期刊论文
BRIEFINGS IN BIOINFORMATICS, 2021, 卷号: 22, 期号: 3, 页码: 15
作者:  Dong, Kangning;  Zhang, Shihua
收藏  |  浏览/下载：115/0  |  提交时间：2022/04/02
cis-regulatory interaction networks  single-cell ATAC-seq  Gaussian graphical LASSO  
3D Genome of macaque fetal brain reveals evolutionary innovations during primate corticogenesis 期刊论文
CELL, 2021, 卷号: 184, 期号: 3, 页码: 723-+
作者:  Luo, Xin;  Liu, Yuting;  Dang, Dachang;  Hu, Ting;  Hou, Yingping;  Meng, Xiaoyu;  Zhang, Fengyun;  Li, Tingting;  Wang, Can;  Li, Min;  Wu, Haixu;  Shen, Qiushuo;  Hu, Yan;  Zeng, Xuerui;  He, Xiechao;  Yan, Lanzhen;  Zhang, Shihua;  Li, Cheng;  Su, Bing
收藏  |  浏览/下载：165/0  |  提交时间：2021/06/01
Learning common and specific patterns from data of multiple interrelated biological scenarios with matrix factorization 期刊论文
NUCLEIC ACIDS RESEARCH, 2019, 卷号: 47, 期号: 13, 页码: 6606-6617
作者:  Zhang, Lihua;  Zhang, Shihua
收藏  |  浏览/下载：192/0  |  提交时间：2020/01/10
MSTD: an efficient method for detecting multi-scale topological domains from symmetric and asymmetric 3D genomic maps 期刊论文
NUCLEIC ACIDS RESEARCH, 2019, 卷号: 47, 期号: 11, 页码: 11
作者:  Ye, Yusen;  Gao, Lin;  Zhang, Shihua
收藏  |  浏览/下载：161/0  |  提交时间：2020/01/10
Reveal cell type-specific regulatory elements and their characterized histone code classes via a hidden Markov model 期刊论文
BMC GENOMICS, 2018, 卷号: 19, 页码: 13
作者:  Wang, Can;  Zhang, Shihua
收藏  |  浏览/下载：251/0  |  提交时间：2019/01/11
Epigenomics  Cell type-specific regulatory elements  Hidden Markov model  Histone modification  
Sparse Weighted Canonical Correlation Analysis 期刊论文
CHINESE JOURNAL OF ELECTRONICS, 2018, 卷号: 27, 期号: 3, 页码: 459-466
作者:  Min Wenwen;  Liu Juan;  Zhang Shihua
收藏  |  浏览/下载：165/0  |  提交时间：2018/07/30
Canonical correlation analysis (CCA)  Sparse canonical correlation analysis (SCCA)  Sparse weighted CCA (SWCCA)  Group LASSO regularized SWCCA  Multi-view SWCCA  
Integrative Analysis of Transcription Factor Combinatorial Interactions Using a Bayesian Tensor Factorization Approach 期刊论文
FRONTIERS IN GENETICS, 2017, 卷号: 8, 页码: 12
作者:  Ye, Yusen;  Gao, Lin;  Zhang, Shihua
收藏  |  浏览/下载：154/0  |  提交时间：2018/07/30
transcription regulation  TF regulatory networks  tensor factorization  integrative analysis of omics data  biological networks  
Discovery of cancer common and specific driver gene sets 期刊论文
NUCLEIC ACIDS RESEARCH, 2017, 卷号: 45, 期号: 10, 页码: 14
作者:  Zhang, Junhua;  Zhang, Shihua
收藏  |  浏览/下载：138/0  |  提交时间：2018/07/30