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A kernel non-negative matrix factorization framework for single cell clustering 期刊论文
APPLIED MATHEMATICAL MODELLING, 2021, 卷号: 90, 页码: 875-888
Authors:  Jiang, Hao;  Yi, Ming;  Zhang, Shihua
Favorite  |  View/Download:2/0  |  Submit date:2021/04/26
Single cell RNA-sequencing  Kernel non-negative matrix factorization  Cellular heterogeneity  
NeuralEE: A GPU-Accelerated Elastic Embedding Dimensionality Reduction Method for Visualizing Large-Scale scRNA-Seq Data 期刊论文
FRONTIERS IN GENETICS, 2020, 卷号: 11, 页码: 8
Authors:  Xiong, Jiankang;  Gong, Fuzhou;  Wan, Lin;  Ma, Liang
Favorite  |  View/Download:3/0  |  Submit date:2021/01/14
single-cell RNA sequencing  elastic embedding  neural networks  large-scale  stochastic optimization  parametric models  generalizable models  
Unsupervised topological alignment for single-cell multi-omics integration 期刊论文
BIOINFORMATICS, 2020, 卷号: 36, 页码: 48-56
Authors:  Cao, Kai;  Bai, Xiangqi;  Hong, Yiguang;  Wan, Lin
Favorite  |  View/Download:3/0  |  Submit date:2021/01/14
RobustClone: a robust PCA method for tumor clone and evolution inference from single-cell sequencing data 期刊论文
BIOINFORMATICS, 2020, 卷号: 36, 期号: 11, 页码: 3299-3306
Authors:  Chen, Ziwei;  Gong, Fuzhou;  Wan, Lin;  Ma, Liang
Favorite  |  View/Download:17/0  |  Submit date:2020/09/23
scTIM: seeking cell-type-indicative marker from single cell RNA-seq data by consensus optimization 期刊论文
BIOINFORMATICS, 2020, 卷号: 36, 期号: 8, 页码: 2474-2485
Authors:  Feng, Zhanying;  Ren, Xianwen;  Fang, Yuan;  Yin, Yining;  Huang, Chutian;  Zhao, Yimin;  Wang, Yong
Favorite  |  View/Download:21/0  |  Submit date:2020/06/30
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
Favorite  |  View/Download:18/0  |  Submit date:2020/06/30
A Branch Point on Differentiation Trajectory is the Bifurcating Event Revealed by Dynamical Network Biomarker Analysis of Single-Cell Data 期刊论文
IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS, 2020, 卷号: 17, 期号: 2, 页码: 366-375
Authors:  Chen, Ziwei;  Bai, Xiangqi;  Ma, Liang;  Wang, Xiawei;  Liu, Xiuqin;  Liu, Yuting;  Chen, Luonan;  Wan, Lin
Favorite  |  View/Download:15/0  |  Submit date:2020/05/24
Trajectory  Heuristic algorithms  Mice  Correlation  Reactive power  Pseudo temporal trajectory  branch point  DNB theory  reconstruction  single-cell data  bifurcation  dynamical system  
Comparison of Computational Methods for Imputing Single-Cell RNA-Sequencing Data 期刊论文
IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS, 2020, 卷号: 17, 期号: 2, 页码: 376-389
Authors:  Zhang, Lihua;  Zhang, Shihua
Favorite  |  View/Download:20/0  |  Submit date:2020/05/24
Gene expression  Sequential analysis  Bioinformatics  RNA  Matrix converters  Computational biology  Bayes methods  Single-cell RNA-sequencing technique  dropout event  imputation  algorithm  bioinformatics  
ELF: Extract Landmark Features By Optimizing Topology Maintenance, Redundancy, and Specificity 期刊论文
IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS, 2020, 卷号: 17, 期号: 2, 页码: 411-421
Authors:  Feng, Zhan-Ying;  Wang, Yong
Favorite  |  View/Download:23/0  |  Submit date:2020/05/24
Feature extraction  Topology  Ground penetrating radar  Geophysical measurement techniques  Redundancy  Maintenance engineering  Manganese  Feature selection  topology maintenance  optimization  single cell  
Statistical test of structured continuous trees based on discordance matrix 期刊论文
BIOINFORMATICS, 2019, 卷号: 35, 期号: 23, 页码: 4962-4970
Authors:  Bai, Xiangqi;  Ma, Liang;  Wan, Lin
Favorite  |  View/Download:12/0  |  Submit date:2020/05/24