Computational pan-cancer characterization of model-based quantitative transcription regulations dysregulated in regional lymph node metastasis. - Meiyu Duan; Lei Zhang; Yueying Wang; Yusi Fan; Shuai Liu 010; Qiong Yu; Lan Huang 002; Fengfeng Zhou (Comput. Biol. Medicine, 2021)

RIFS2D: A two-dimensional version of a randomly restarted incremental feature selection algorithm with an application for detecting low-ranked biomarkers. - Sida Gao; Puli Wang; Yuming Feng; Xuchen Xie; Meiyu Duan; Yusi Fan; Shuai Liu 010; Lan Huang 002; Fengfeng Zhou (Comput. Biol. Medicine, 2021)

Pan-cancer identification of the relationship of metabolism-related differentially expressed transcription regulation with non-differentially expressed target genes via a gated recurrent unit network. - Meiyu Duan; Yueying Wang; Ya Qiao; Yangyang Wang; Xingyuan Pan; Zhuyu Hu; Yanyue Ran; Xian Fu; Yusi Fan; Lan Huang 002; Fengfeng Zhou (Comput. Biol. Medicine, 2022)

Transforming OMIC features for classification using siamese convolutional networks. - Qian Wang; Meiyu Duan; Yusi Fan; Shuai Liu 010; Yanjiao Ren; Lan Huang 002; Fengfeng Zhou (J. Bioinform. Comput. Biol., 2022)

Gender-specific dysregulations of nondifferentially expressed biomarkers of metastatic colon cancer. - Meiyu Duan; Yaqing Liu; Dong Zhao; Haijun Li; Gongyou Zhang; Hongmei Liu; Yueying Wang; Yusi Fan; Lan Huang 002; Fengfeng Zhou (Comput. Biol. Chem., 2023)

OCMR: A comprehensive framework for optical chemical molecular recognition. - Yan Wang 028; Ruochi Zhang; Shengde Zhang; Liming Guo; Qiong Zhou; Bowen Zhao; Xiaotong Mo; Qian Yang; Yajuan Huang; Kewei Li; Yusi Fan; Lan Huang 002; et al. (Comput. Biol. Medicine, 2023)

GSRNet, an adversarial training-based deep framework with multi-scale CNN and BiGRU for predicting genomic signals and regions. - Gancheng Zhu; Yusi Fan; Fei Li 039; Annebella Tsz Ho Choi; Zhikang Tan; Yiruo Cheng; Kewei Li; Siyang Wang; Changfan Luo; Hongmei Liu; Gongyou Zhang; Zhaomin Yao; et al. (Expert Syst. Appl., 2023)

AMPCliff: quantitative definition and benchmarking of activity cliffs in antimicrobial peptides. - Kewei Li; Yuqian Wu; Yutong Guo; Yinheng Li; Yusi Fan; Ruochi Zhang; Lan Huang 002; Fengfeng Zhou (CoRR, 2024)

TemporalPaD: a reinforcement-learning framework for temporal feature representation and dimension reduction. - Xuechen Mu; Zhenyu Huang; Kewei Li; Haotian Zhang; Xiuli Wang; Yusi Fan; Kai Zhang; Fengfeng Zhou (CoRR, 2024)

FairCare: Adversarial training of a heterogeneous graph neural network with attention mechanism to learn fair representations of electronic health records. - Yan Wang 028; Ruochi Zhang; Qian Yang; Qiong Zhou; Shengde Zhang; Yusi Fan; Lan Huang 002; Kewei Li; Fengfeng Zhou (Inf. Process. Manag., 2024)

GraCEImpute: A novel graph clustering autoencoder approach for imputation of single-cell RNA-seq data. - Yueying Wang; Kewei Li; Ruochi Zhang; Yusi Fan; Lan Huang 002; Fengfeng Zhou (Comput. Biol. Medicine, 2025)

TaiChiNet: PCA-based Ying-Yang dilution of inter- and intra-BERT layers to represent anti-coronavirus peptides. - Kewei Li; Shiying Ding; Zhe Guo; Yusi Fan; Hongmei Liu; Yannan Sun; Gongyou Zhang; Ruochi Zhang; Lan Huang 002; Fengfeng Zhou (Expert Syst. Appl., 2025)

DeepSelective: Feature Gating and Representation Matching for Interpretable Clinical Prediction. - Ruochi Zhang; Qian Yang; Xiaoyang Wang; Haoran Wu; Qiong Zhou; Yu Wang 225; Kewei Li; Yueying Wang; Yusi Fan; Jiale Zhang; Lan Huang 002; Chang Liu 082; et al. (CoRR, 2025)

MolProphecy: Bridging Medicinal Chemists' Knowledge and Molecular Pre-Trained Models via a Multi-Modal Framework. - Jianping Zhao; Qiong Zhou; Tian Wang; Yusi Fan; Qian Yang; Li Jiao; Chang Liu 082; Zhehao Guo; Qi Lu; Fengfeng Zhou; Ruochi Zhang (CoRR, 2025)