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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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RegScaf: a regression approach to scaffolding
期刊论文
BIOINFORMATICS, 2022, 页码: 8
作者:
Li, Mengtian
;
Li, Lei M.
收藏
  |  
浏览/下载:99/0
  |  
提交时间:2022/06/21
Bayesian Joint Matrix Decomposition for Data Integration with Heterogeneous Noise
期刊论文
IEEE TRANSACTIONS ON PATTERN ANALYSIS AND MACHINE INTELLIGENCE, 2021, 卷号: 43, 期号: 4, 页码: 1184-1196
作者:
Zhang, Chihao
;
Zhang, Shihua
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  |  
浏览/下载:175/0
  |  
提交时间:2021/04/26
Matrix decomposition
Bayes methods
Data integration
Inference algorithms
Data models
Data mining
Gaussian distribution
Bayesian methods
matrix decomposition
data integration
variational Bayesian inference
maximum a posterior
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
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  |  
浏览/下载:151/0
  |  
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
An Integrative Framework for Combining Sequence and Epigenomic Data to Predict Transcription Factor Binding Sites Using Deep Learning
期刊论文
IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS, 2021, 卷号: 18, 期号: 1, 页码: 355-364
作者:
Jing, Fang
;
Zhang, Shao-Wu
;
Cao, Zhen
;
Zhang, Shihua
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  |  
浏览/下载:160/0
  |  
提交时间:2021/04/26
Bioinformatics
machine learning
transcription factors binding sites
convolutional neural networks
DNA accessibility
histone modification
Prediction of enhancer-promoter interactions using the cross-cell type information and domain adversarial neural network
期刊论文
BMC BIOINFORMATICS, 2020, 卷号: 21, 期号: 1, 页码: 16
作者:
Jing, Fang
;
Zhang, Shao-Wu
;
Zhang, Shihua
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  |  
浏览/下载:139/0
  |  
提交时间:2021/01/14
Enhancer–
promoter interactions
Cell line
Convolutional neural network
Transfer learning
Gradient reversal layer
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
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  |  
浏览/下载:144/0
  |  
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
Dual Eigen-modules of Cis-Element Regulation Profiles and Selection of Cognition-Language Eigen-direction along Evolution in Hominidae
期刊论文
MOLECULAR BIOLOGY AND EVOLUTION, 2020, 卷号: 37, 期号: 6, 页码: 1679-1693
作者:
Li, Liang
;
Zhang, Sheng
;
Li, Lei M.
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  |  
浏览/下载:134/0
  |  
提交时间:2021/01/14
cis-element frequency
dual eigenmodule
polarized eigenvector
Alu element
cognition
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
作者:
Zhang, Lihua
;
Zhang, Shihua
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  |  
浏览/下载:161/0
  |  
提交时间: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
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
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  |  
浏览/下载:180/0
  |  
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
Circular Trajectory Reconstruction Uncovers Cell-Cycle Progression and Regulatory Dynamics from Single-Cell Hi-C Maps
期刊论文
ADVANCED SCIENCE, 2019, 页码: 13
作者:
Ye, Yusen
;
Gao, Lin
;
Zhang, Shihua
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  |  
浏览/下载:261/0
  |  
提交时间:2020/01/10
cell cycle
chromosomal architectures
circular trajectory
dynamic structures
single-cell Hi-C maps