Identifying overlapping mutated driver pathways by constructing gene networks in cancer. - Hao Wu 062; Lin Gao 006; Feng Li 033; Fei Song; Xiaofei Yang 003; Nikola K. Kasabov (BMC Bioinform., 2015)

Network-Based Method for Inferring Cancer Progression at the Pathway Level from Cross-Sectional Mutation Data. - Hao Wu 062; Lin Gao 006; Nikola K. Kasabov (IEEE ACM Trans. Comput. Biol. Bioinform., 2016)

Strategies of attack-defense game for wireless sensor networks considering the effect of confidence level in fuzzy environment. - Yingfu Wu; Bingyi Kang; Hao Wu 062 (Eng. Appl. Artif. Intell., 2021)

Large-scale comparative review and assessment of computational methods for anti-cancer peptide identification. - Xiao Liang; Fuyi Li; Jinxiang Chen; Junlong Li; Hao Wu 062; Shuqin Li; Jiangning Song; Quanzhong Liu (Briefings Bioinform., 2021)

scHiCSC: A Novel Single-Cell Hi-C Clustering Framework by Contact-Weight-Based Smoothing and Feature Fusion. - Xiangfei Zhou; Zhenqi Shi; Yingfu Wu; Jin Zhao; Hao Wu 062 (BIBM, 2022)

scHiCStackL: a stacking ensemble learning-based method for single-cell Hi-C classification using cell embedding. - Hao Wu 062; Yingfu Wu; Yuhong Jiang; Bing Zhou; Haoru Zhou; Zhongli Chen; Yi Xiong 002; Quanzhong Liu; Hongming Zhang 002 (Briefings Bioinform., 2022)

StackTADB: a stacking-based ensemble learning model for predicting the boundaries of topologically associating domains (TADs) accurately in fruit flies. - Hao Wu 062; Pengyu Zhang; Zhaoheng Ai; Leyi Wei; Hongming Zhang 002; Fan Yang 068; Lizhen Cui (Briefings Bioinform., 2022)

Signaling repurposable drug combinations against COVID-19 by developing the heterogeneous deep herb-graph method. - Fan Yang 068; Shuaijie Zhang; Wei Pan; Ruiyuan Yao; Weiguo Zhang; Yanchun Zhang; Guoyin Wang 001; Qianghua Zhang; Yunlong Cheng; Jihua Dong; Chunyang Ruan; Lizhen Cui; et al. (Briefings Bioinform., 2022)

CLNN-loop: a deep learning model to predict CTCF-mediated chromatin loops in the different cell lines and CTCF-binding sites (CBS) pair types. - Pengyu Zhang; Yingfu Wu; Haoru Zhou; Bing Zhou; Hongming Zhang 002; Hao Wu 062 (Bioinform., 2022)

MultiSimNeNc: A network representation learning-based module identification method by network embedding and clustering. - Hao Wu 062; Biting Liang; Zhongli Chen; Hongming Zhang 002 (Comput. Biol. Medicine, 2023)

IChrom-Deep: An Attention-Based Deep Learning Model for Identifying Chromatin Interactions. - Pengyu Zhang; Hao Wu 062 (IEEE J. Biomed. Health Informatics, 2023)

Enhancer-MDLF: a novel deep learning framework for identifying cell-specific enhancers. - Yao Zhang; Pengyu Zhang; Hao Wu 062 (Briefings Bioinform., 2024)

scHiClassifier: a deep learning framework for cell type prediction by fusing multiple feature sets from single-cell Hi-C data. - Xiangfei Zhou; Hao Wu 062 (Briefings Bioinform., 2024)

CTPredictor: A comprehensive and robust framework for predicting cell types by integrating multi-scale features from single-cell Hi-C data. - Zhenqi Shi; Hao Wu 062 (Comput. Biol. Medicine, 2024)

HHGNN: Hyperbolic Hypergraph Convolutional Neural Network based on variational autoencoder. - Zhangyu Mei; Xiao Bi; Yating Wen; Xianchun Kong; Hao Wu 062 (Neurocomputing, 2024)

lncLocator-imb: An Imbalance-Tolerant Ensemble Deep Learning Framework for Predicting Long Non-Coding RNA Subcellular Localization. - Haibin Liu; Dianguo Li; Hao Wu 062 (IEEE J. Biomed. Health Informatics, 2024)

A novel deep learning framework with dynamic tokenization for identifying chromatin interactions along with motif importance investigation. - Liangcan Li; Xin Li; Hao Wu 062 (Briefings Bioinform., 2025)

GRANet: a graph residual attention network for gene regulatory network inference. - Junliang Zhou; Ningji Gong; Yanjun Hu; Hong Yu 007; Guoyin Wang 001; Hao Wu 062 (Briefings Bioinform., 2025)

DHHNN: A Dynamic Hypergraph Hyperbolic Neural Network based on variational autoencoder for multimodal data integration and node classification. - Zhangyu Mei; Xiao Bi; Dianguo Li; Wen Xia; Fan Yang 068; Hao Wu 062 (Inf. Fusion, 2025)

A Rule-Guided Community Detection Method for Identifying Subpopulations in Medical Data. - Hanyue Liu; Hong Yu 007; Hao Wu 062; Guoyin Wang 001 (IEEE J. Biomed. Health Informatics, 2025)