Shihua Zhang

发表

Matrix Integrative Analysis (MIA) of Multiple Genomic Data for Modular Patterns

Jinyu Chen, Shihua Zhang, Shihua Zhang, 2018, Front. Genet..

High-dimensional genomic data bias correction and data integration using MANCIE

Ke Deng, Yang Xie, Chongzhi Zang, 2016, Nature Communications.

Circular Trajectory Reconstruction Uncovers Cell‐Cycle Progression and Regulatory Dynamics from Single‐Cell Hi‐C Maps

Lin Gao, Shihua Zhang, Yusen Ye, 2019, Advanced science.

THE PRESSURE RISE FOR UNIFORM CONDUITS AND INCREASE OF SPEED OF ROTATION OF WATER-TURBINES FOR THE DUAL SPEED CLOSURE OF GATES

Shihua Zhang, Taizo Hayashi, Yuichiro Turumaki, 1992 .

MSTD for Detecting Topological Domains from 3D Genomic Maps.

Lin Gao, Shihua Zhang, Yusen Ye, 2020, Methods in molecular biology.

MSIQ: JOINT MODELING OF MULTIPLE RNA-SEQ SAMPLES FOR ACCURATE ISOFORM QUANTIFICATION.

Anqi Zhao, Wei Vivian Li, Jingyi Jessica Li, 2016, The annals of applied statistics.

Network-Regularized Sparse Logistic Regression Models for Clinical Risk Prediction and Biomarker Discovery

Juan Liu, Wenwen Min, Shihua Zhang, 2016, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

Simple tricks of convolutional neural network architectures improve DNA-protein binding prediction

Zhen Cao, Shihua Zhang, Shihua Zhang, 2018, Bioinform..

Imputing single-cell RNA-seq data by considering cell heterogeneity and prior expression of dropouts

Shihua Zhang, Lihua Zhang, Shihua Zhang, 2020, Journal of molecular cell biology.

gkm-DNN: efficient prediction using gapped k-mer features and deep neural networks

Shihua Zhang, Zhen Cao, Shihua Zhang, 2017, bioRxiv.

Matrix factorization methods for integrative cancer genomics.

Xianghong Jasmine Zhou, Shihua Zhang, Shihua Zhang, 2014, Methods in molecular biology.

The Discovery of Mutated Driver Pathways in Cancer: Models and Algorithms

Junhua Zhang, Shihua Zhang, Shihua Zhang, 2016, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

Discovering Link Communities in Complex Networks by an Integer Programming Model and a Genetic Algorithm

Hongwei Liu, Xiang-Sun Zhang, Zhenping Li, 2013, PloS one.

TBC2target: A Resource of Predicted Target Genes of Tea Bioactive Compounds

Yijun Wang, Jian Yang, Zhongwen Xie, 2018, Front. Plant Sci..

Towards understanding residual and dilated dense neural networks via convolutional sparse coding

Shihua Zhang, Zhiyang Zhang, 2021, National science review.

Network diffusion for scalable embedding of massive single-cell ATAC-seq data

Shihua Zhang, Kangning Dong, 2021 .

Joint reconstruction of cis-regulatory interaction networks across multiple tissues using single-cell chromatin accessibility data

Shihua Zhang, Kangning Dong, Shihua Zhang, 2019, bioRxiv.

Maximizing Modularity Density for Exploring Modular Organization of Protein Interaction Networks ∗

Chris Ding, Shihua Zhang, C. Ding, 2009 .

Discovery of two-level modular organization from matched genomic data via joint matrix tri-factorization

Jinyu Chen, Shihua Zhang, Shihua Zhang, 2018, Nucleic acids research.

Toward a systematic understanding of cancers: a survey of the pan-cancer study

Shihua Zhang, Zhaoqi Liu, Shihua Zhang, 2014, Front. Genet..

Mathematical Model and Algorithm for Link Community Detection in Bipartite Networks

Xiang-Sun Zhang, Shihua Zhang, Shihua Zhang, 2015 .

Detecting community structure in complex networks based on a measure of information discrepancy

Xiang-Sun Zhang, Junhua Zhang, Shihua Zhang, 2008 .

Comparative Study on A Class of Evaluation Indices for Community Detection

Xiang-Sun Zhang, Junhua Zhang, Shihua Zhang, 2008 .

Hubs with Network Motifs Organize Modularity Dynamically in the Protein-Protein Interaction Network of Yeast

Xiang-Sun Zhang, Guangxu Jin, Luonan Chen, 2007, PloS one.

Comparison of protein structures by multi-objective optimization.

Xiang-Sun Zhang, Yong Wang, Ling-Yun Wu, 2005, Genome informatics. International Conference on Genome Informatics.

Exploring the constrained maximum edge-weight connected graph problem

Xiang-Sun Zhang, Luonan Chen, Shihua Zhang, 2009 .

Erratum: Quantitative function for community detection [Phys. Rev. E 77, 036109 (2008)]

Xiang-Sun Zhang, Rui-Sheng Wang, Luonan Chen, 2015 .

Breast tumor subgroups reveal diverse clinical prognostic power

Xiang-Sun Zhang, Shihua Zhang, Zhaoqi Liu, 2014, Scientific Reports.

High-resolution functional annotation of human transcriptome: predicting isoform functions by a novel multiple instance-based label propagation method

Yan Liu, Xianghong Jasmine Zhou, Shihua Zhang, 2013, Nucleic acids research.

Discovery of cancer common and specific driver gene sets

Shihua Zhang, Shihua Zhang, Junhua Zhang, 2016, Nucleic acids research.

Brief Survey of Biological Network Alignment and a Variant with Incorporation of Functional Annotations

Shihua Zhang, Shao-Wu Zhang, Fang Jing, 2018, Current Bioinformatics.

Stratification of amyotrophic lateral sclerosis patients: a crowdsourcing approach

Jung-Hsien Chiang, Devin C. Koestler, Celine Vens, 2018, Scientific Reports.

Tumor characterization and stratification by integrated molecular profiles reveals essential pan-cancer features

Shihua Zhang, Zhaoqi Liu, Shihua Zhang, 2015, BMC Genomics.

An integrative and comparative study of pan-cancer transcriptomes reveals distinct cancer common and specific signatures

Shihua Zhang, Zhen Cao, Shihua Zhang, 2016, Scientific Reports.