A Multigroup Parallel Genetic Algorithm for Multiple Sequence Alignment. - Jiawei Luo 001; Li Zhang; Cheng Liang 001 (AICI (1), 2011)

Mirsynergy: detecting synergistic miRNA regulatory modules by overlapping neighbourhood expansion. - Yue Li 017; Cheng Liang 001; Ka-Chun Wong; Jiawei Luo 001; Zhaolei Zhang (Bioinform., 2014)

A novel motif-discovery algorithm to identify co-regulatory motifs in large transcription factor and microRNA co-regulatory networks in human. - Cheng Liang 001; Yue Li 017; Jiawei Luo 001; Zhaolei Zhang (Bioinform., 2015)

MOEPGA: A novel method to detect protein complexes in yeast protein-protein interaction networks based on MultiObjective Evolutionary Programming Genetic Algorithm. - Buwen Cao; Jiawei Luo 001; Cheng Liang 001; Shulin Wang; Dan Song (Comput. Biol. Chem., 2015)

Detecting overlapping protein complexes in weighted protein-protein interaction networks using pseudo-clique extension based on fuzzy relation. - Buwen Cao; Jiawei Luo 001; Cheng Liang 001; Shulin Wang (IJCNN, 2016)

A Novel Method to Detect Functional microRNA Regulatory Modules by Bicliques Merging. - Cheng Liang 001; Yue Li 017; Jiawei Luo 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2016)

A Novel Group Wise-Based Method for Calculating Human miRNA Functional Similarity. - Pingjian Ding; Jiawei Luo 001; Cheng Liang 001; Jie Cai; Ying Liu 027; Xiangtao Chen (IEEE Access, 2017)

Predicting MicroRNA-Disease Associations Using Network Topological Similarity Based on DeepWalk. - Guanghui Li 003; Jiawei Luo 001; Qiu Xiao; Cheng Liang 001; Pingjian Ding; Buwen Cao (IEEE Access, 2017)

Predicting MicroRNA-Disease Associations Using Kronecker Regularized Least Squares Based on Heterogeneous Omics Data. - Jiawei Luo 001; Qiu Xiao; Cheng Liang 001; Pingjian Ding (IEEE Access, 2017)

Collective Prediction of Disease-Associated miRNAs Based on Transduction Learning. - Jiawei Luo 001; Pingjian Ding; Cheng Liang 001; Buwen Cao; Xiangtao Chen (IEEE ACM Trans. Comput. Biol. Bioinform., 2017)

An Efficient Network Motif Discovery Approach for Co-Regulatory Networks. - Jiawei Luo 001; Lv Ding; Cheng Liang 001; Tu Hoang Nguyen (IEEE Access, 2018)

KATZMDA: Prediction of miRNA-Disease Associations Based on KATZ Model. - Yu Qu; Huaxiang Zhang 001; Cheng Liang 001; Xiao Dong (IEEE Access, 2018)

A graph regularized non-negative matrix factorization method for identifying microRNA-disease associations. - Qiu Xiao; Jiawei Luo 001; Cheng Liang 001; Jie Cai; Pingjian Ding (Bioinform., 2018)

Semi-supervised prediction of human miRNA-disease association based on graph regularization framework in heterogeneous networks. - Jiawei Luo 001; Pingjian Ding; Cheng Liang 001; Xiangtao Chen (Neurocomputing, 2018)

Human disease MiRNA inference by combining target information based on heterogeneous manifolds. - Pingjian Ding; Jiawei Luo 001; Cheng Liang 001; Qiu Xiao; Buwen Cao (J. Biomed. Informatics, 2018)

Predicting microRNA-disease associations using label propagation based on linear neighborhood similarity. - Guanghui Li 003; Jiawei Luo 001; Qiu Xiao; Cheng Liang 001; Pingjian Ding (J. Biomed. Informatics, 2018)

MTMO: an efficient network-centric algorithm for subtree counting and enumeration. - Guanghui Li 003; Jiawei Luo 001; Zheng Xiao; Cheng Liang 001 (Quant. Biol., 2018)

Prediction of LncRNA-Disease Associations Based on Network Consistency Projection. - Guanghui Li 003; Jiawei Luo 001; Cheng Liang 001; Qiu Xiao; Pingjian Ding; Yuejin Zhang (IEEE Access, 2019)

CeModule: an integrative framework for discovering regulatory patterns from genomic data in cancer. - Qiu Xiao; Jiawei Luo 001; Cheng Liang 001; Jie Cai; Guanghui Li 003; Buwen Cao (BMC Bioinform., 2019)

DNA Sequencing Technologies: Sequencing Data Protocols and Bioinformatics Tools. - Ka-Chun Wong; Jiao Zhang 003; Shankai Yan; Xiangtao Li; Qiuzhen Lin; Sam Kwong; Cheng Liang 001 (ACM Comput. Surv., 2019)

Correlation of Gut Microbiome Between ASD Children and Mothers and Potential Biomarkers for Risk Assessment. - Ning Li; Junjie Yang; Jiaming Zhang; Cheng Liang 001; Ying Wang 001; Bin Chen; Changying Zhao; Jingwen Wang; Guangye Zhang; Dongmei Zhao; Yi Liu; Lehai Zhang; et al. (Genom. Proteom. Bioinform., 2019)

Adaptive multi-view multi-label learning for identifying disease-associated candidate miRNAs. - Cheng Liang 001; Shengpeng Yu; Jiawei Luo 001 (PLoS Comput. Biol., 2019)

Multi-view feature selection via Nonnegative Structured Graph Learning. - Xiangpin Bai; Lei Zhu 002; Cheng Liang 001; Jingjing Li 001; Xiushan Nie; Xiaojun Chang (Neurocomputing, 2020)

Robust optimal graph clustering. - Fei Wang 055; Lei Zhu 002; Cheng Liang 001; Jingjing Li 001; Xiaojun Chang; Ke Lu 001 (Neurocomputing, 2020)

Potential circRNA-disease association prediction using DeepWalk and network consistency projection. - Guanghui Li 003; Jiawei Luo 001; Diancheng Wang; Cheng Liang 001; Qiu Xiao; Pingjian Ding; Hailin Chen (J. Biomed. Informatics, 2020)

Incorporating Multisource Knowledge To Predict Drug Synergy Based on Graph Co-regularization. - Pingjian Ding; Cong Shen 002; Zihan Lai; Cheng Liang 001; Guanghui Li 003; Jiawei Luo 001 (J. Chem. Inf. Model., 2020)

Identifying lncRNA and mRNA Co-Expression Modules from Matched Expression Data in Ovarian Cancer. - Qiu Xiao; Jiawei Luo 001; Cheng Liang 001; Guanghui Li 003; Jie Cai; Pingjian Ding; Ying Liu 027 (IEEE ACM Trans. Comput. Biol. Bioinform., 2020)

Cancer Subtype Identification based on Multi-view Subspace Clustering with Adaptive Local Structure Learning. - Haoran Liu; Mingchao Shang; Huaxiang Zhang 001; Cheng Liang 001 (BIBM, 2021)

Cancer subtype identification by consensus guided graph autoencoders. - Cheng Liang 001; Mingchao Shang; Jiawei Luo 001 (Bioinform., 2021)

Inferring MicroRNA-Disease Associations Based on the Identification of a Functional Module. - Buwen Cao; Shuguang Deng; Hua Qin; Jiawei Luo 001; Guanghui Li 003; Cheng Liang 001 (J. Comput. Biol., 2021)

Inferring Synergistic Drug Combinations Based on Symmetric Meta-Path in a Novel Heterogeneous Network. - Pingjian Ding; Cheng Liang 001; Wenjue Ouyang; Guanghui Li 003; Qiu Xiao; Jiawei Luo 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2021)

A knowledge-driven network for fine-grained relationship detection between miRNA and disease. - Shengpeng Yu; Hong Wang 015; Tianyu Liu; Cheng Liang 001; Jiawei Luo 001 (Briefings Bioinform., 2022)

Predicting miRNA-disease associations based on graph attention network with multi-source information. - Guanghui Li 003; Tao Fang; Yuejin Zhang; Cheng Liang 001; Qiu Xiao; Jiawei Luo 001 (BMC Bioinform., 2022)

GGAECDA: Predicting circRNA-disease associations using graph autoencoder based on graph representation learning. - Guanghui Li 003; Yawei Lin; Jiawei Luo 001; Qiu Xiao; Cheng Liang 001 (Comput. Biol. Chem., 2022)

Multiview Robust Graph-Based Clustering for Cancer Subtype Identification. - Xiaofeng Shi; Cheng Liang 001; Hong Wang 015 (IEEE ACM Trans. Comput. Biol. Bioinform., 2023)

CasANGCL: pre-training and fine-tuning model based on cascaded attention network and graph contrastive learning for molecular property prediction. - Zixi Zheng; Yanyan Tan; Hong Wang 015; Shengpeng Yu; Tianyu Liu; Cheng Liang 001 (Briefings Bioinform., 2023)

Deep multi-view contrastive learning for cancer subtype identification. - Wenlan Chen; Hong Wang 015; Cheng Liang 001 (Briefings Bioinform., 2023)

Identifying spatial domains of spatially resolved transcriptomics via multi-view graph convolutional networks. - Xuejing Shi; Juntong Zhu; Yahui Long; Cheng Liang 001 (Briefings Bioinform., 2023)

Incomplete multi-view clustering by simultaneously learning robust representations and optimal graph structures. - Mingchao Shang; Cheng Liang 001; Jiawei Luo 001; Huaxiang Zhang 001 (Inf. Sci., 2023)

Multi-view unsupervised feature selection with tensor robust principal component analysis and consensus graph learning. - Cheng Liang 001; Lianzhi Wang; Li Liu 031; Huaxiang Zhang 001; Fei Guo 001 (Pattern Recognit., 2023)

Protein-protein interaction site prediction by model ensembling with hybrid feature and self-attention. - Hanhan Cong; Hong Liu 013; Yi Cao; Cheng Liang 001; Yuehui Chen (BMC Bioinform., 2023)

EMPPNet: Enhancing Molecular Property Prediction via Cross-modal Information Flow and Hierarchical Attention. - Zixi Zheng; Hong Wang 015; Yanyan Tan; Cheng Liang 001; Yanshen Sun (Expert Syst. Appl., 2023)

MNCLCDA: predicting circRNA-drug sensitivity associations by using mixed neighbourhood information and contrastive learning. - Guanghui Li 003; Feifan Zeng; Jiawei Luo 001; Cheng Liang 001; Qiu Xiao (BMC Medical Informatics Decis. Mak., 2023)

GCEA: Contrastive-Enhanced Autoencoders with Adaptive Completion for Partial Multi-omics Integration in Cancer Subtyping. - Weiting Yu; Zhimin Li; Cheng Liang 001 (ICIC (LNBI 1), 2024)

Deep learning model for protein multi-label subcellular localization and function prediction based on multi-task collaborative training. - Peihao Bai; Guanghui Li 003; Jiawei Luo 001; Cheng Liang 001 (Briefings Bioinform., 2024)

Sparse graph cascade multi-kernel fusion contrastive learning for microbe-disease association prediction. - Shengpeng Yu; Hong Wang 015; Meifang Hua; Cheng Liang 001; Yanshen Sun (Expert Syst. Appl., 2024)

A Multi-Relational Graph Encoder Network for Fine-Grained Prediction of MiRNA-Disease Associations. - Shengpeng Yu; Hong Wang 015; Jing Li; Jun Zhao 017; Cheng Liang 001; Yanshen Sun (IEEE ACM Trans. Comput. Biol. Bioinform., 2024)

Identifying virulence factors using graph transformer autoencoder with ESMFold-predicted structures. - Guanghui Li 003; Peihao Bai; Jiao Chen; Cheng Liang 001 (Comput. Biol. Medicine, 2024)

Robust Tensor Subspace Learning for Incomplete Multi-View Clustering. - Cheng Liang 001; Daoyuan Wang; Huaxiang Zhang 001; Shichao Zhang 001; Fei Guo 001 (IEEE Trans. Knowl. Data Eng., 2024)

Drug repositioning based on residual attention network and free multiscale adversarial training. - Guanghui Li 003; Shuwen Li; Cheng Liang 001; Qiu Xiao; Jiawei Luo 001 (BMC Bioinform., 2024)

EDDINet: Enhancing drug-drug interaction prediction via information flow and consensus constrained multi-graph contrastive learning. - Hong Wang 015; Luhe Zhuang; Yijie Ding; Prayag Tiwari; Cheng Liang 001 (Artif. Intell. Medicine, 2025)

PCLSurv: a prototypical contrastive learning-based multi-omics data integration model for cancer survival prediction. - Zhimin Li; Wenlan Chen; Hai Zhong; Cheng Liang 001 (Briefings Bioinform., 2025)

Unsupervised multi-view feature selection based on weighted low-rank tensor learning and its application in multi-omics datasets. - Daoyuan Wang; Lianzhi Wang; Wenlan Chen; Hong Wang 015; Cheng Liang 001 (Eng. Appl. Artif. Intell., 2025)

Robust high-order graph learning for incomplete multi-view clustering. - Daoyuan Wang; Fujian Ren; Yuntang Zhuang; Cheng Liang 001 (Expert Syst. Appl., 2025)