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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
作者:  Zou, Meng;  Duren, Zhana;  Yuan, Qiuyue;  Li, Henry;  Hutchins, Andrew Paul;  Wong, Wing Hung;  Wang, Yong
收藏  |  浏览/下载：155/0  |  提交时间：2022/04/02
cell type-specific marker  TFs  surface markers  dimension reduction  hierarchical topology  
Group-Sparse SVD Models via L-1- and L-0-norm Penalties and their Applications in Biological Data 期刊论文
IEEE TRANSACTIONS ON KNOWLEDGE AND DATA ENGINEERING, 2021, 卷号: 33, 期号: 2, 页码: 536-550
作者:  Min, Wenwen;  Liu, Juan;  Zhang, Shihua
收藏  |  浏览/下载：173/0  |  提交时间：2021/04/26
Sparse SVD  low-rank matrix decomposition  group-sparse penalty  overlapping group-sparse penalty  coordinate descent method  alternating direction method of multipliers (ADMM)  data mining  
Imputing single-cell RNA-seq data by considering cell heterogeneity and prior expression of dropouts 期刊论文
JOURNAL OF MOLECULAR CELL BIOLOGY, 2021, 卷号: 13, 期号: 1, 页码: 29-40
作者:  Zhang, Lihua;  Zhang, Shihua
收藏  |  浏览/下载：134/0  |  提交时间：2021/10/26
single-cell RNA-seq  dropout  imputation  low-rank  systems biology  
A General Joint Matrix Factorization Framework for Data Integration and Its Systematic Algorithmic Exploration 期刊论文
IEEE TRANSACTIONS ON FUZZY SYSTEMS, 2020, 卷号: 28, 期号: 9, 页码: 1971-1983
作者:  Zhang, Lihua;  Zhang, Shihua
收藏  |  浏览/下载：153/0  |  提交时间：2021/01/14
Sparse matrices  Pattern recognition  Data integration  Prediction algorithms  Data models  Matrix decomposition  Signal processing algorithms  Bioinformatics  data integration  network-regularized constraint  nonnegative matrix factorization (NMF)  pattern recognition  
Probe Efficient Feature Representation of Gapped K-mer Frequency Vectors from Sequences Using Deep Neural Networks 期刊论文
IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS, 2020, 卷号: 17, 期号: 2, 页码: 657-667
作者:  Cao, Zhen;  Zhang, Shihua
收藏  |  浏览/下载：202/0  |  提交时间：2020/05/24
DNA  Bioinformatics  Kernel  Feature extraction  Support vector machines  Genomics  Task analysis  Bioinformatics  machine learning  gapped k-mer  deep neural network  transcription factor binding site prediction  
Joint feature screening for ultra-high-dimensional sparse additive hazards model by the sparsity-restricted pseudo-score estimator 期刊论文
ANNALS OF THE INSTITUTE OF STATISTICAL MATHEMATICS, 2019, 卷号: 71, 期号: 5, 页码: 1007-1031
作者:  Chen, Xiaolin;  Liu, Yi;  Wang, Qihua
收藏  |  浏览/下载：212/0  |  提交时间：2020/01/10
Additive hazards model  Joint feature screening  Iterative hard-thresholding algorithm  Sure screening property  
Applying Ricci flow to high dimensional manifold learning 期刊论文
SCIENCE CHINA-INFORMATION SCIENCES, 2019, 卷号: 62, 期号: 9, 页码: 14
作者:  Li, Yangyang;  Lu, Ruqian
收藏  |  浏览/下载：160/0  |  提交时间：2020/01/10
manifold learning  Ricci flow  Ricci curvature  dimension reduction  curvature estimation  
Edge-group sparse PCA for network-guided high dimensional data analysis 期刊论文
BIOINFORMATICS, 2018, 卷号: 34, 期号: 20, 页码: 3479-3487
作者:  Min, Wenwen;  Liu, Juan;  Zhang, Shihua
收藏  |  浏览/下载：193/0  |  提交时间：2019/01/11
Robust Reconstruction of Continuously Time-Varying Topologies of Weighted Networks 期刊论文
IEEE TRANSACTIONS ON CIRCUITS AND SYSTEMS I-REGULAR PAPERS, 2018, 卷号: 65, 期号: 9, 页码: 2970-2982
作者:  Liu, Juan;  Mei, Guofeng;  Wu, Xiaoqun;  Lu, Jinhu
收藏  |  浏览/下载：165/0  |  提交时间：2018/09/08
Time-varying and state-dependent network topology  structure reconstruction  Taylor expansion  alternating direction method of multipliers (ADMM)  
Locality preserving projection on SPD matrix Lie group: algorithm and analysis 期刊论文
SCIENCE CHINA-INFORMATION SCIENCES, 2018, 卷号: 61, 期号: 9, 页码: 15
作者:  Li, Yangyang;  Lu, Ruqian
收藏  |  浏览/下载：173/0  |  提交时间：2018/07/30
manifold learning  SPD matrix Lie group  locally preserving projection  Laplace operator  Log Euclidean metric