Prediction of Blood-Brain Barrier Permeability of Compounds by Fusing Resampling Strategies and eXtreme Gradient Boosting. - Zhiwen Shi; Yanyi Chu; Yonghong Zhang; Yanjing Wang 003; Dong-Qing Wei (IEEE Access, 2021)

DTI-MLCD: predicting drug-target interactions using multi-label learning with community detection method. - Yanyi Chu; Xiaoqi Shan; Tianhang Chen; Mingming Jiang; Yanjing Wang 003; Qiankun Wang; Dennis Russell Salahub; Yi Xiong 002; Dong-Qing Wei (Briefings Bioinform., 2021)

MDA-GCNFTG: identifying miRNA-disease associations based on graph convolutional networks via graph sampling through the feature and topology graph. - Yanyi Chu; Xuhong Wang; Qiuying Dai; Yanjing Wang 003; Qiankun Wang; Shaoliang Peng; Xiaoyong Wei; Jingfei Qiu; Dennis Russell Salahub; Yi Xiong 002; Dong-Qing Wei (Briefings Bioinform., 2021)

NeuroPpred-Fuse: an interpretable stacking model for prediction of neuropeptides by fusing sequence information and feature selection methods. - Mingming Jiang; Bowen Zhao; Shenggan Luo; Qiankun Wang; Yanyi Chu; Tianhang Chen; Xueying Mao; Yatong Liu; Yanjing Wang 003; Xue Jiang; Dong-Qing Wei; Yi Xiong 002 (Briefings Bioinform., 2021)

Irinotecan and vandetanib create synergies for treatment of pancreatic cancer patients with concomitant TP53 and KRAS mutations. - Aman Chandra Kaushik; Yanjing Wang 003; Xiangeng Wang; Dong-Qing Wei (Briefings Bioinform., 2021)

MDA-CF: Predicting MiRNA-Disease associations based on a cascade forest model by fusing multi-source information. - Qiuying Dai; Yanyi Chu; Zhiqi Li; Yusong Zhao; Xueying Mao; Yanjing Wang 003; Yi Xiong 002; Dong-Qing Wei (Comput. Biol. Medicine, 2021)

Bioinformatics analysis of the differences in the binding profile of the wild-type and mutants of the SARS-CoV-2 spike protein variants with the ACE2 receptor. - Muhammad Suleman; Qudsia Yousafi; Javaid Ali; Syed Shujait Ali; Zahid Hussain; Shahid Ali; Muhammad Waseem; Arshad Iqbal; Sajjad Ahmad; Abbas Khan; Yanjing Wang 003; Dong-Qing Wei (Comput. Biol. Medicine, 2021)

MDF-SA-DDI: predicting drug-drug interaction events based on multi-source drug fusion, multi-source feature fusion and transformer self-attention mechanism. - Shenggeng Lin; Yanjing Wang 003; Lingfeng Zhang; Yanyi Chu; Yatong Liu; Yitian Fang; Mingming Jiang; Qiankun Wang; Bowen Zhao; Yi Xiong 002; Dong-Qing Wei (Briefings Bioinform., 2022)

A protein coupling and molecular simulation analysis of the clinical mutants of androgen receptor revealed a higher binding for Leupaxin, to increase the prostate cancer invasion and motility. - Abbas Khan; Wenfeng Li; Amna Ambreen; Dong-Qing Wei; Yanjing Wang 003; Yuanshen Mao (Comput. Biol. Medicine, 2022)

Subtractive proteomics assisted therapeutic targets mining and designing ensemble vaccine against Candida auris for immune response induction. - Taimoor Khan; Muhammad Suleman; Syed Shujait Ali; Muhammad Farhan Sarwar; Imtiaz Ali; Liaqat Ali; Abbas Khan; Bakht Rokhan; Yanjing Wang 003; Ruili Zhao; Dong-Qing Wei (Comput. Biol. Medicine, 2022)

Discovering potent inhibitors against the Mpro of the SARS-CoV-2. A medicinal chemistry approach. - Aamir Mehmood; Sadia Nawab; Yanjing Wang 003; Aman Chandra Kaushik; Dong-Qing Wei (Comput. Biol. Medicine, 2022)

Evaluation and identification of essential therapeutic proteins and vaccinomics approach towards multi-epitopes vaccine designing against Legionella pneumophila for immune response instigation. - Ismail Shah; Sehrooz Jamil; Saira Rehmat; Hammad Ahmad Butt; Syed Shujait Ali; Muhammad Idrees; Yifei Zhan; Zahid Hussain; Shahid Ali; Muhammad Waseem; Arshad Iqbal; Sajjad Ahmad; et al. (Comput. Biol. Medicine, 2022)

A transformer-based model to predict peptide-HLA class I binding and optimize mutated peptides for vaccine design. - Yanyi Chu; Yan Zhang; Qiankun Wang; Lingfeng Zhang; Xuhong Wang; Yanjing Wang 003; Dennis Russell Salahub; Qin Xu; Jianmin Wang 016; Xue Jiang; Yi Xiong 002; Dong-Qing Wei (Nat. Mach. Intell., 2022)

Proteomics-based vaccine targets annotation and design of subunit and mRNA-based vaccines for Monkeypox virus (MPXV) against the recent outbreak. - Yifan Jin; Addeela Fayyaz; Ayesha Liaqat; Abbas Khan; Abdulrahman Alshammari; Yanjing Wang 003; Ruo-Xu Gu; Dong-Qing Wei (Comput. Biol. Medicine, 2023)

Inhibition of cMYC-MAX transcription factors hetero-dimerization with structurally engineered omoMYC to downregulate oncogenic pathways in renal carcinoma. - Wenfeng Li; Farah Bano; Abbas Khan; Dong-Qing Wei; Abdulrahman Alshammari; Bin Xu; Yanjing Wang 003 (Comput. Biol. Medicine, 2023)

GATRsite: RNA-Ligand Binding Site Prediction Using Graph Attention Networks and Pretrained RNA Language Models. - Chuance Sun; Linghao Zhang; Lingfeng Zhang; Yuehua Song; Buyong Ma; Yanjing Wang 003 (J. Chem. Inf. Model., 2025)