Prediction of CYP450 Enzyme-Substrate Selectivity Based on the Network-Based Label Space Division Method. - Xiaoqi Shan; Xiangeng Wang; Cheng-Dong Li; Yanyi Chu; Yufang Zhang; Yi Xiong 002; Dong-Qing Wei (J. Chem. Inf. Model., 2019)

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-CDF: a cascade deep forest model towards the prediction of drug-target interactions based on hybrid features. - Yanyi Chu; Aman Chandra Kaushik; Xiangeng Wang; Wei Wang 309; Yufang Zhang; Xiaoqi Shan; Dennis Russell Salahub; Yi Xiong 002; Dong-Qing Wei (Briefings Bioinform., 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)

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)

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)

De novo molecular design with deep molecular generative models for PPI inhibitors. - Jianmin Wang 016; Yanyi Chu; Jiashun Mao; Hyeon-Nae Jeon; Haiyan Jin; Amir Zeb; Yuil Jang; Kwang-Hwi Cho; Tao Song 001; Kyoung Tai No (Briefings Bioinform., 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)

ReHoGCNES-MDA: prediction of miRNA-disease associations using homogenous graph convolutional networks based on regular graph with random edge sampler. - Yufang Zhang; Yanyi Chu; Shenggeng Lin; Yi Xiong 002; Dong-Qing Wei (Briefings Bioinform., 2024)

Latent Diffusion Models for Controllable RNA Sequence Generation. - Kaixuan Huang; Yukang Yang; Kaidi Fu; Yanyi Chu; Le Cong; Mengdi Wang (CoRR, 2024)

A 5′ UTR language model for decoding untranslated regions of mRNA and function predictions. - Yanyi Chu; Dan Yu; Yupeng Li; Kaixuan Huang; Yue Shen; Le Cong; Jason Zhang; Mengdi Wang (Nat. Mac. Intell., 2024)

Author Correction: A 5′ UTR language model for decoding untranslated regions of mRNA and function predictions. - Yanyi Chu; Dan Yu; Yupeng Li; Kaixuan Huang; Yue Shen; Le Cong; Jason Zhang; Mengdi Wang (Nat. Mac. Intell., 2024)