RDF Sketch Maps - Knowledge Complexity Reduction for Precision Medicine Analytics. - Nattaphon Thanintorn; Juexin Wang; Ilker Ersoy; Zainab Al-Taie; Yuexu Jiang; Duolin Wang; Megha Verma; Trupti Joshi; Richard D. Hammer; Dong Xu 002; Dmitriy Shin (PSB, 2016)

IMPRes: Integrative MultiOmics pathway resolution algorithm and tool. - Yuexu Jiang; Yanchun Liang 001; Duolin Wang; Dong Xu 002; Trupti Joshi (BIBM, 2017)

Application of deep learning in genomic selection. - Yang Liu; Duolin Wang (BIBM, 2017)

A deep-learning framework for amidation site prediction. - Penghui Shang; Duolin Wang; Dongpeng Liu; Dong Xu 002 (BIBM, 2017)

MusiteDeep: A deep-learning framework for protein post-translational modification site prediction. - Duolin Wang; Dongpeng Liu (BIBM, 2017)

MusiteDeep: a deep-learning framework for general and kinase-specific phosphorylation site prediction. - Duolin Wang; Shuai Zeng; Chunhui Xu; Wangren Qiu; Yanchun Liang 001; Trupti Joshi; Dong Xu 002 (Bioinform., 2017)

Integrating Gene Expression Data and Pathway Knowledge for In Silico Hypothesis Generation with IMPRes. - Yuexu Jiang; Duolin Wang; Dong Xu 002; Trupti Joshi (BIBM, 2018)

An Informatics Framework for Knowledge Representation and Reconciliation of Disease Pathways. - Yulia Innokenteva; Olha Kholod; Fei He 005; Duolin Wang; Richard D. Hammer; Dong Xu 002; Dmitriy Shin (AMIA, 2019)

Capsule Network for Predicting Zinc Binding Sites in Metalloproteins. - Clement Essien; Duolin Wang; Dong Xu 002 (BIBM, 2019)

Protein Ubiquitylation and Sumoylation Site Prediction Based on Ensemble and Transfer Learning. - Fei He 003; Rui Wang; Yanxin Gao; Duolin Wang; Yang Yu; Dong Xu 002; Xiaowei Zhao 004 (BIBM, 2019)

Extracting Molecular Entities and Their Interactions from Pathway Figures Based on Deep Learning. - Fei He 005; Duolin Wang; Yulia Innokenteva; Olha Kholod; Dmitriy Shin; Dong Xu 002 (BIBM, 2019)

DeepDom: Predicting protein domain boundary from sequence alone using stacked bidirectional. - Yuexu Jiang; Duolin Wang; Dong Xu 002 (PSB, 2019)

Capsule network for protein post-translational modification site prediction. - Duolin Wang; Yanchun Liang 001; Dong Xu 002 (Bioinform., 2019)

Detection of Malfunctioning Smart Electricity Meter. - Ming Liu 024; Dongpeng Liu; Guangyu Sun; Yi Zhao; Duolin Wang; Fangxing Liu; Xiang Fang; Qing He; Dong Xu 002 (CoRR, 2019)

A dynamic programing approach to integrate gene expression data and network information for pathway model generation. - Yuexu Jiang; Yanchun Liang 001; Duolin Wang; Dong Xu 002; Trupti Joshi (Bioinform., 2020)

MusiteDeep: a deep-learning based webserver for protein post-translational modification site prediction and visualization. - Duolin Wang; Dongpeng Liu; Jiakang Yuchi; Fei He 005; Yuexu Jiang; Siteng Cai; Jingyi Li; Dong Xu 002 (Nucleic Acids Res., 2020)

G2PDeep: a web-based deep-learning framework for quantitative phenotype prediction and discovery of genomic markers. - Shuai Zeng; Ziting Mao; Yijie Ren; Duolin Wang; Dong Xu 002; Trupti Joshi (Nucleic Acids Res., 2021)

Evaluating template-based and template-free protein-peptide complex structure prediction using AlphaFold2. - Negin Manshour; Yang Yu; Wenyuan Qin; Fei He 003; Duolin Wang; Dong Xu 002 (BIBM, 2022)

Robust Anomaly Detection and Localization via Simulated Anomalies. - Yadang Chen; Mei Wang; Duolin Wang; Dichao Li (VRCAI, 2022)

RNALocate v2.0: an updated resource for RNA subcellular localization with increased coverage and annotation. - Tianyu Cui; Yiying Dou; Puwen Tan; Zhen Ni; Tianyuan Liu; Duolin Wang; Yan Huang; Kaican Cai; Xiaoyang Zhao; Dong Xu 002; Hao Lin 001; Dong Wang 011 (Nucleic Acids Res., 2022)

Semi-Supervised Contrastive Learning for Few-Shot Segmentation of Remote Sensing Images. - Yadang Chen; Chenchen Wei; Duolin Wang; Chuanjun Ji; Baozhu Li (Remote. Sens., 2022)

Diffusion Models in Bioinformatics: A New Wave of Deep Learning Revolution in Action. - Zhiye Guo; Jian Liu; Yanli Wang; Mengrui Chen; Duolin Wang; Dong Xu; Jianlin Cheng (CoRR, 2023)

Global video object segmentation with spatial constraint module. - Yadang Chen; Duolin Wang; Zhiguo Chen; Zhi-Xin Yang 001; Enhua Wu (Comput. Vis. Media, 2023)

Meta-learning for T cell receptor binding specificity and beyond. - Duolin Wang; Fei He 003; Yang Yu; Dong Xu 002 (Nat. Mac. Intell., 2023)

MULocDeep web service for protein localization prediction and visualization at subcellular and suborganellar levels. - Yuexu Jiang; Lei Jiang; Chopparapu Sai Akhil; Duolin Wang; Ziyang Zhang; Weinan Zhang 002; Dong Xu 002 (Nucleic Acids Res., 2023)

Spatial-Aware Transformer (SAT): Enhancing Global Modeling in Transformer Segmentation for Remote Sensing Images. - Duolin Wang; Yadang Chen; Bushra Naz; Le Sun 002; Baozhu Li (Remote. Sens., 2023)

Prompt-Based Learning on Large Protein Language Models Improves Signal Peptide Prediction. - Shuai Zeng; Duolin Wang; Lei Jiang; Dong Xu 002 (RECOMB, 2024)

Eliciting knowledge from language models with automatically generated continuous prompts. - Yadang Chen; Gang Yang; Duolin Wang; Dichao Li (Expert Syst. Appl., 2024)

Bridging peptide presentation and T cell recognition with multi-task learning. - Li Su; Duolin Wang; Dong Xu 002 (Nat. Mac. Intell., 2025)

Prot2Token: A Unified Framework for Protein Modeling via Next-Token Prediction. - Mahdi Pourmirzaei; Farzaneh Esmaili; Salhuldin Alqarghuli; Mohammadreza Pourmirzaei; Ye Han; Kai Chen; Mohsen Rezaei; Duolin Wang; Dong Xu (CoRR, 2025)