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博士畢業(yè)于上海交通大學(xué)，同時于加拿大 University of Calgary 聯(lián)合培養(yǎng)，獲致遠榮譽博士學(xué)位，本科畢業(yè)于沈陽藥科大學(xué)。曾在斯坦福大學(xué)、普林斯頓大學(xué)和Arc Institute從事博士后研究工作。自2026年起任中國科學(xué)院分子細胞科學(xué)卓越創(chuàng)新中心（生物化學(xué)與細胞生物學(xué)研究所）研究員，研究組長，博士生導(dǎo)師。

1. Yanyi Chu, Dan Yu, Yupeng Li, Kaixuan Huang, Yue Shen, Le Cong, Jason Zhang, and Mengdi Wang,?A 5'UTR Language Model for Decoding Untranslated Regions of mRNA and Function Predictions,?Nature Machine Intelligence,?https://doi.org/10.1038/s42256-024-00823-9
2. Yanyi Chu, Yan Zhang, Qiankun Wang, Lingfeng Zhang, Xuhong Wang, Yanjing Wang, Dennis Russell Salahub, Qin Xu, Jianmin Wang, Xue Jiang, Yi Xiong, Dong-Qing Wei,?A transformer-based model to predict peptide-HLA class I binding and optimize mutated peptides for vaccine design,?Nature Machine Intelligence, Volume 4, 23 March 2022, Pages 300-311,?https://doi.org/10.1038/s42256-022-00459-7
3. Yanyi Chu, Xuhong Wang, Qiuying Dai, Yanjing Wang, Qiankun Wang, Shaoliang Peng, Xiaoyong Wei, Jingfei Qiu, Dennis Russell Salahub, Yi Xiong, Dong-Qing Wei,?MDA-GCNFTG: identifying miRNA-disease associations based on graph convolutional networks via graph sampling through the feature and topology graph,?Briefings in Bioinformatics, Volume 22, Issue 6, November 2021, bbab165,?https://doi.org/10.1093/bib/bbab165
4. Yanyi Chu, Xiaoqi Shan, Tianhang Chen, Mingming Jiang, Yanjing Wang, Qiankun Wang, Dennis Russell Salahub, Yi Xiong, Dong-Qing Wei,?DTI-MLCD: predicting drug-target interactions using multi-label learning with community detection method,?Briefings in Bioinformatics, Volume 22, Issue 3, May 2021, bbaa205,?https://doi.org/10.1093/bib/bbaa205
5. Yanyi Chu, Aman Chandra Kaushik, Xiangeng Wang, Wei Wang, Yufang Zhang, Xiaoqi Shan, Dennis Russell Salahub, Yi Xiong, Dong-Qing Wei,?DTI-CDF: a cascade deep forest model towards the prediction of drug-target interactions based on hybrid features,?Briefings in Bioinformatics, Volume 22, Issue 1, January 2021, Pages 451–462,?https://doi.org/10.1093/bib/bbz152
6. Xueying Mao, Yanyi Chu, Dong-Qing Wei. Designed with interactome-based deep learning. Nat Chem Biol?20, 1399–1401 (2024). https://doi.org/10.1038/s41589-024-01754-7
7. Kaixuan Huang, Yukang Yang, Kaidi Fu,?Yanyi Chu, Le Cong, and Mengdi Wang,?Latent diffusion models for controllable rna sequence generation,?arXiv preprint arXiv:2409.09828,?https://arxiv.org/abs/2409.09828
8. Mengyang Liu,?Yanyi Chu, Huan Liu, Yuqing Su, Qi Zhang, Jiao Jiao, Mingqi Liu, Junqiang Ding, Min Liu, Yawei Hu, Yueying Dai, Rongping Zhang, Xinrong Liu, Yihui Deng, Yanzhi Song,?Accelerated Blood Clearance of Nanoemulsions Modified with PEG-Cholesterol and PEG-Phospholipid Derivatives in Rats: The Effect of PEG-Lipid Linkages and PEG Molecular Weights,?Molecular pharmaceutics, Volume 17, Issue 4, April 2020, Pages 1059–1070,?https://doi.org/10.1021/acs.molpharmaceut.9b00770
9. Zhiwen Shi,?Yanyi Chu, Yonghong Zhang, Yanjing Wang, Dong-Qing Wei,?Prediction of Blood-Brain Barrier Permeability of Compounds by Fusing Resampling Strategies and eXtreme Gradient Boosting,?IEEE Access, Volume 9, December 2020, Pages 9557-9566,?http://doi.org/10.1109/ACCESS.2020.3047852
10. Qiuying Dai,?Yanyi Chu, Zhiqi Li, Yusong Zhao, Xueying Mao, Yanjing Wang, Yi Xiong, Dong-Qing Wei,?MDA-CF: Predicting MiRNA-Disease associations based on a cascade forest model by fusing multi-source information,?Computers in Biology and Medicine, Volume 136, September 2021, 104706,?https://doi.org/10.1016/j.compbiomed.2021.104706
11. Tianhang Chen, Xiangeng Wang,?Yanyi Chu, Yanjing Wang, Mingming Jiang, Dong-Qing Wei, Yi Xiong,?T4SE-XGB: Interpretable Sequence-Based Prediction of Type IV Secreted Effectors Using eXtreme Gradient Boosting Algorithm,?Frontiers in Microbiology, Volume 11, Article 580382, September 2020,?https://doi.org/10.3389/fmicb.2020.580382
12. Shenggeng Lin, Yanjing Wang, Lingfeng Zhang,?Yanyi Chu, Yatong Liu, Yitian Fang, Mingming Jiang, Qiankun Wang, Bowen Zhao, Yi Xiong, Dong-Qing Wei,?MDF-SA-DDI: predicting drug-drug interaction events based on multi-source drug fusion, multi-source feature fusion and transformer self-attention mechanism,?Briefings in Bioinformatics, Article bbab421, October 2021,?https://doi.org/10.1093/bib/bbab421
13. Xiaoqi Shan, Xiangeng Wang, Cheng-dong Li,?Yanyi Chu, Yufang Zhang, Yi Xiong, and Dong-Qing Wei,?Prediction of CYP450 Enzyme–Substrate Selectivity Based on the Network-Based Label Space Division Method,?Journal of Chemical Information and Modeling, Volume 59, Issue 11, October 2019, Pages 4577-4586,?https://doi.org/10.1021/acs.jcim.9b00749
14. Yufang Zhang, Xiangeng Wang, Aman Chandra Kaushik,?Yanyi Chu, Xiaoqi Shan, Ming-Zhu Zhao, Qin Xu, Dong-Qing Wei,?SPVec: A Word2vec-Inspired Feature Representation Method for Drug-Target Interaction Prediction,?Frontiers in Chemistry, Volume 7, January 2020, Pages 895,?https://doi.org/10.3389/fchem.2019.00895
15. Mingming Jiang, Bowen Zhao, Shenggan Luo, Qiankun Wang,?Yanyi Chu, Tianhang Chen, Xueying Mao, Yatong Liu, Yanjing Wang, Xue Jiang, Dong-Qing Wei, Yi Xiong,?NeuroPpred-Fuse: an interpretable stacking model for prediction of neuropeptides by fusing sequence information and feature selection methods,?Briefings in Bioinformatics, Volume 22, Issue 6, November 2021, bbab310,?https://doi.org/10.1093/bib/bbab310