Ruiqing Zheng

Publication Activity (10 Years)

Years Active: 2017-2024
Publications (10 Years): 34

Top Topics

Multivariate Adaptive Regression Splines

Protein Interaction

Subspace Clustering

Top Venues

IEEE ACM Trans. Comput. Biol. Bioinform.

Briefings Bioinform.

Publications

Ju Xiang, Shengkai Chen, Xiangmao Meng, Ruiqing Zheng, Ying Zheng, Min Li
MSMK: Multiscale Module Kernel for Identifying Disease-Related Genes. ISBRA (1) (2024)
Yongxin He, Jin Liu, Min Li, Ruiqing Zheng
scCoRR: A Data-Driven Self-correction Framework for Labeled scRNA-Seq Data. ISBRA (2) (2024)
Wei Lan, Weihao Zhou, Qingfeng Chen, Ruiqing Zheng, Yi Pan, Yi-Ping Phoebe Chen
Modeling Single-Cell ATAC-Seq Data Based on Contrastive Learning. ISBRA (1) (2024)
Yunpei Xu, Hong-Dong Li, Cui-Xiang Lin, Ruiqing Zheng, Yaohang Li, Jinhui Xu, Jianxin Wang
CellBRF: a feature selection method for single-cell clustering using cell balance and random forest. Bioinform. 39 (Supplement-1) (2023)
Yanping Zeng, Yongxin He, Ruiqing Zheng, Min Li
Inferring single-cell gene regulatory network by non-redundant mutual information. Briefings Bioinform. 24 (5) (2023)
Xuhua Yan, Ruiqing Zheng, Jinmiao Chen, Min Li
scNCL: transferring labels from scRNA-seq to scATAC-seq data with neighborhood contrastive regularization. Bioinform. 39 (8) (2023)
Ruiqing Zheng, Yanping Zeng, Weixing Zeng, Min Li
A flexible gene regulatory network reconstruction method based on autoencoder and graph attention network. BIBM (2023)
Siqi Chen, Xuhua Yan, Ruiqing Zheng, Min Li
Bubble: a fast single-cell RNA-seq imputation using an autoencoder constrained by bulk RNA-seq data. Briefings Bioinform. 24 (1) (2023)
Xiaolin Wang, Hongli Gao, Ren Qi, Ruiqing Zheng, Xin Gao, Bin Yu
scBKAP: A Clustering Model for Single-Cell RNA-Seq Data Based on Bisecting K-Means. IEEE ACM Trans. Comput. Biol. Bioinform. 20 (3) (2023)
Xuhua Yan, Ruiqing Zheng, Fang-Xiang Wu, Min Li
CLAIRE: contrastive learning-based batch correction framework for better balance between batch mixing and preservation of cellular heterogeneity. Bioinform. 39 (3) (2023)
Xiangmao Meng, Ju Xiang, Ruiqing Zheng, Fang-Xiang Wu, Min Li
DPCMNE: Detecting Protein Complexes From Protein-Protein Interaction Networks Via Multi-Level Network Embedding. IEEE ACM Trans. Comput. Biol. Bioinform. 19 (3) (2022)
Xuhua Yan, Ruiqing Zheng, Min Li
GLOBE: a contrastive learning-based framework for integrating single-cell transcriptome datasets. Briefings Bioinform. 23 (5) (2022)
Haonan Feng, Ruiqing Zheng, Jianxin Wang, Fang-Xiang Wu, Min Li
NIMCE: A Gene Regulatory Network Inference Approach Based on Multi Time Delays Causal Entropy. IEEE ACM Trans. Comput. Biol. Bioinform. 19 (2) (2022)
Siqi Chen, Ruiqing Zheng, Luyi Tian, Fang-Xiang Wu, Min Li
BayesImpute: a Bayesian imputation method for single-cell RNA-seq data. BIBM (2022)
Wei Lan, Yi Dong, Qingfeng Chen, Ruiqing Zheng, Jin Liu, Yi Pan, Yi-Ping Phoebe Chen
KGANCDA: predicting circRNA-disease associations based on knowledge graph attention network. Briefings Bioinform. 23 (1) (2022)
Ziwei Xu, Ruiqing Zheng, Yuxuan Chen, Edwin Wang, Min Li
A single cell potency inference method based on the local cell-specific network entropy. BIBM (2022)
Senbiao Fang, Ruoqian Zheng, Chuqi Lei, Jianxin Wang, Ruiqing Zheng, Min Li
Key residues influencing binding affinities of 2019-nCoV with ACE2 in different species. Briefings Bioinform. 22 (2) (2021)
Min Li, Yake Wang, Ruiqing Zheng, Xinghua Shi, Yaohang Li, Fang-Xiang Wu, Jianxin Wang
DeepDSC: A Deep Learning Method to Predict Drug Sensitivity of Cancer Cell Lines. IEEE ACM Trans. Comput. Biol. Bioinform. 18 (2) (2021)
Yanping Zeng, Xuhua Yan, Zhenlan Liang, Ruiqing Zheng, Min Li
MKG: a mutual information based method to infer single cell gene regulatory network. BIBM (2021)
Zhenlan Liang, Min Li, Ruiqing Zheng, Yu Tian, Xuhua Yan, Jin Chen, Fang-Xiang Wu, Jianxin Wang
SSRE: Cell Type Detection Based on Sparse Subspace Representation and Similarity Enhancement. Genom. Proteom. Bioinform. 19 (2) (2021)
Ju Xiang, Jiashuai Zhang, Ruiqing Zheng, Xingyi Li, Min Li
NIDM: network impulsive dynamics on multiplex biological network for disease-gene prediction. Briefings Bioinform. 22 (5) (2021)
Ruiqing Zheng, Min Li, Xiang Chen, Siyu Zhao, Fang-Xiang Wu, Yi Pan, Jianxin Wang
An Ensemble Method to Reconstruct Gene Regulatory Networks Based on Multivariate Adaptive Regression Splines. IEEE ACM Trans. Comput. Biol. Bioinform. 18 (1) (2021)
Zhenlan Liang, Ruiqing Zheng, Siqi Chen, Xuhua Yan, Min Li
DeepCI: a deep learning based clustering method for single cell RNA-seq data. BIBM (2021)
Xingyi Li, Wenkai Li, Min Zeng, Ruiqing Zheng, Min Li
Network-based methods for predicting essential genes or proteins: a survey. Briefings Bioinform. 21 (2) (2020)
Ruiqing Zheng, Zhenlan Liang, Xiangmao Meng, Yu Tian, Min Li
A robust single cell clustering method based on subspace learning and partial imputation. BIBM (2020)
Min Li, Xiangmao Meng, Ruiqing Zheng, Fang-Xiang Wu, Yaohang Li, Yi Pan, Jianxin Wang
Identification of Protein Complexes by Using a Spatial and Temporal Active Protein Interaction Network. IEEE ACM Trans. Comput. Biol. Bioinform. 17 (3) (2020)
Ruiqing Zheng, Min Li, Xiang Chen, Fang-Xiang Wu, Yi Pan, Jianxin Wang
BiXGBoost: a scalable, flexible boosting-based method for reconstructing gene regulatory networks. Bioinform. 35 (11) (2019)
Min Li, Ruiqing Zheng, Yaohang Li, Fang-Xiang Wu, Jianxin Wang
MGT-SM: A Method for Constructing Cellular Signal Transduction Networks. IEEE ACM Trans. Comput. Biol. Bioinform. 16 (2) (2019)
Ruiqing Zheng, Min Li, Zhenlan Liang, Fang-Xiang Wu, Yi Pan, Jianxin Wang
SinNLRR: a robust subspace clustering method for cell type detection by non-negative and low-rank representation. Bioinform. 35 (19) (2019)
Qingfeng Chen, Canshang Deng, Wei Lan, Zhixian Liu, Ruiqing Zheng, Jin Liu, Jianxin Wang
Identifying Interactions Between Kinases and Substrates Based on Protein-Protein Interaction Network. J. Comput. Biol. 26 (8) (2019)
Siyu Zhao, Ruiqing Zheng, Xiang Chen, Yaohang Li, Fang-Xiang Wu, Min Li
PBMarsNet: A Multivariate Adaptive Regression Splines Based Method to Reconstruct Gene Regulatory Networks. ISBRA (2018)
Yake Wang, Min Li, Ruiqing Zheng, Xinghua Shi, Yaohang Li, Fang-Xiang Wu, Jianxin Wang
Using Deep Neural Network to Predict Drug Sensitivity of Cancer Cell Lines. ICIC (2) (2018)
Canshang Deng, Qingfeng Chen, Zhixian Liu, Ruiqing Zheng, Jin Liu, Jianxin Wang, Wei Lan
KSIBW: Predicting Kinase-Substrate Interactions Based on Bi-random Walk. ISBRA (2018)
Jin Liu, Min Li, Yi Pan, Wei Lan, Ruiqing Zheng, Fang-Xiang Wu, Jianxin Wang
Complex Brain Network Analysis and Its Applications to Brain Disorders: A Survey. Complex. 2017 (2017)