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Simple tricks of convolutional neural network architectures improve DNA-protein binding prediction 期刊论文
BIOINFORMATICS, 2019, 卷号: 35, 期号: 11, 页码: 1837-1843
作者:  Cao, Zhen;  Zhang, Shihua
收藏  |  浏览/下载：189/0  |  提交时间：2020/01/10
Network-Regularized Sparse Logistic Regression Models for Clinical Risk Prediction and Biomarker Discovery 期刊论文
IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS, 2018, 卷号: 15, 期号: 3, 页码: 944-953
作者:  Min, Wenwen;  Liu, Juan;  Zhang, Shihua
收藏  |  浏览/下载：250/0  |  提交时间：2018/07/30
Sparse logistic regression  network-regularized penalty  survival risk prediction  feature selection  
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：152/0  |  提交时间：2018/07/30
transcription regulation  TF regulatory networks  tensor factorization  integrative analysis of omics data  biological networks  
Quantitative function and algorithm for community detection in bipartite networks 期刊论文
INFORMATION SCIENCES, 2016, 卷号: 367, 页码: 874-889
作者:  Li, Zhenping;  Wang, Rui-Sheng;  Zhang, Shihua;  Zhang, Xiang-Sun
收藏  |  浏览/下载：168/0  |  提交时间：2018/07/30
Bipartite network  Community  Quantitative function  Integer programming  Label propagation algorithm  
Local community extraction in directed networks 期刊论文
PHYSICA A-STATISTICAL MECHANICS AND ITS APPLICATIONS, 2016, 卷号: 452, 页码: 258-265
作者:  Ning, Xuemei;  Liu, Zhaoqi;  Zhang, Shihua
收藏  |  浏览/下载：135/0  |  提交时间：2018/07/30
Complex network  Community structure  Clustering  Optimization  
Integrative analysis for identifying joint modular patterns of gene-expression and drug-response data 期刊论文
BIOINFORMATICS, 2016, 卷号: 32, 期号: 11, 页码: 1724-1732
作者:  Chen, Jinyu;  Zhang, Shihua
收藏  |  浏览/下载：141/0  |  提交时间：2018/07/30
A Two-Stage Method to Identify Joint Modules From Matched MicroRNA and mRNA Expression Data 期刊论文
IEEE TRANSACTIONS ON NANOBIOSCIENCE, 2016, 卷号: 15, 期号: 4, 页码: 362-370
作者:  Min, Wenwen;  Liu, Juan;  Luo, Fei;  Zhang, Shihua
收藏  |  浏览/下载：170/0  |  提交时间：2018/07/30
L-0-penalized singular value decomposition (L-0-SVD)  miRNA cluster  miRNA-gene joint module  multiple-output sparse group lasso  
Systematic DNA methylation analysis of multiple cell lines reveals common and specific patterns within and across tissues of origin 期刊论文
HUMAN MOLECULAR GENETICS, 2015, 卷号: 24, 期号: 15, 页码: 4374-4384
作者:  Yang, Xiaofei;  Shao, Xiaojian;  Gao, Lin;  Zhang, Shihua
收藏  |  浏览/下载：154/0  |  提交时间：2018/07/30
Detecting disease associated modules and prioritizing active genes based on high throughput data 期刊论文
BMC BIOINFORMATICS, 2010, 卷号: 11, 页码: 12
作者:  Qiu, Yu-Qing;  Zhang, Shihua;  Zhang, Xiang-Sun;  Chen, Luonan
收藏  |  浏览/下载：130/0  |  提交时间：2018/07/30
Disease-Aging Network Reveals Significant Roles of Aging Genes in Connecting Genetic Diseases 期刊论文
PLOS COMPUTATIONAL BIOLOGY, 2009, 卷号: 5, 期号: 9, 页码: 12
作者:  Wang, Jiguang;  Zhang, Shihua;  Wang, Yong;  Chen, Luonan;  Zhang, Xiang-Sun
收藏  |  浏览/下载：138/0  |  提交时间：2018/07/30