Yu Li (李煜)

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Xin GaoProfessor, Computer Sciences; Director, Computational Bioscience Research CenterVerified email at kaust.edu.sa
Ramzan UmarovPostdoctoral researcher, RIKENVerified email at riken.jp
Sheng WangZelixir BiotechVerified email at zelixir.com
Yixuan WangPh.D. Candidate in CSE, Chinese University of Hong KongVerified email at cse.cuhk.edu.hk
Lizhong Ding (丁立中)Inception Institute of Artificial Intelligence (IIAI), Abu Dhabi, UAEVerified email at inceptioniai.org
Le SongBiomap, Mohamed bin Zayed University of Artificial IntelligenceVerified email at biomap.com
Irwin KingThe Chinese University of Hong KongVerified email at cse.cuhk.edu.hk
Licheng ZongPh.D. Candidate@CUHK, Visiting@EMBL-EBI & CambridgeVerified email at ebi.ac.uk
hiroyuki kuwaharaResearch Scientist at KAUSTVerified email at kaust.edu.sa
Liang HongPhD at The Chinese University of Hong KongVerified email at link.cuhk.edu.hk
Qingxiong TanComputer Science & Engineering, Chinese University of Hong KongVerified email at cuhk.edu.hk
Jiayang ChenCUHKVerified email at cuhk.edu.hk
Mo LiKing Abdullah University of Science and Technology (KAUST)Verified email at kaust.edu.sa
wei chenProfessor of Systems Biology, Southern University of Science and TechnologyVerified email at sustech.edu.cn
Hanjun DaiGoogle DeepMindVerified email at google.com
Xinshi ChenGeorgia Institution of TechnologyVerified email at bytedance.com
Yuqi ChengPhD student @ College of Computing, Georgia Institute of TechnologyVerified email at gatech.edu
Ting-Fung ChanSchool of Life Sciences, The Chinese University of Hong KongVerified email at cuhk.edu.hk
Siyuan ChenKING ABDULLAH UNIVERSITY/SCIENCE/TECHNOLVerified email at kaust.edu.sa
Xuhui HuangHirschfelder Chair in Theoretical Chemistry, University of Wisconsin-Madison (previously at HKUST)Verified email at chem.wisc.edu

Yu Li (李煜)

Assistant Professor, Computer Science & Engineering, Chinese University of Hong Kong

Verified email at cse.cuhk.edu.hk - Homepage

Deep Learning Bioinformatics Healthcare Machine Learning


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Deep learning in bioinformatics: Introduction, application, and perspective in the big data era Y Li, C Huang, L Ding, Z Li, Y Pan, X Gao Methods 166, 4-21, 2019	382	2019
DEEPre: sequence-based enzyme EC number prediction by deep learning Y Li, S Wang, R Umarov, B Xie, M Fan, L Li, X Gao Bioinformatics 34 (5), 760-769, 2018	280	2018
Progressive-hint prompting improves reasoning in large language models C Zheng, Z Liu, E Xie, Z Li, Y Li arXiv preprint arXiv:2304.09797, 2023	111	2023
DeepSimulator: a deep simulator for Nanopore sequencing Y Li, R Han, C Bi, M Li, S Wang, X Gao Bioinformatics 34 (17), 2899-2908, 2018	110	2018
RNA secondary structure prediction by learning unrolled algorithms X Chen, Y Li, R Umarov, X Gao, L Song arXiv preprint arXiv:2002.05810, 2020	108	2020
mlDEEPre: multi-functional enzyme function prediction with hierarchical multi-label deep learning Z Zou, S Tian, X Gao, Y Li Frontiers in genetics 9, 714, 2019	108	2019
Promoter analysis and prediction in the human genome using sequence-based deep learning models R Umarov, H Kuwahara, Y Li, X Gao, V Solovyev Bioinformatics 35 (16), 2730-2737, 2019	101	2019
A self-adaptive deep learning algorithm for accelerating multi-component flash calculation T Zhang, Y Li, Y Li, S Sun, X Gao Computer Methods in Applied Mechanics and Engineering 369, 113207, 2020	95	2020
A deep learning framework to predict binding preference of RNA constituents on protein surface JH Lam, Y Li, L Zhu, R Umarov, H Jiang, A Héliou, FK Sheong, T Liu, ... Nature communications 10 (1), 4941, 2019	94	2019
Modern deep learning in bioinformatics H Li, S Tian, Y Li, Q Fang, R Tan, Y Pan, C Huang, Y Xu, X Gao Journal of molecular cell biology 12 (11), 823-827, 2020	93	2020
HMD-ARG: hierarchical multi-task deep learning for annotating antibiotic resistance genes Y Li, Z Xu, W Han, H Cao, R Umarov, A Yan, M Fan, H Chen, CM Duarte, ... Microbiome 9, 1-12, 2021	69	2021
H-NS uses an autoinhibitory conformational switch for environment-controlled gene silencing UF Shahul Hameed, C Liao, AK Radhakrishnan, F Huser, SS Aljedani, ... Nucleic acids research 47 (5), 2666-2680, 2019	64	2019
Accelerating flash calculation through deep learning methods Y Li, T Zhang, S Sun, X Gao Journal of Computational Physics 394, 153-165, 2019	63	2019
Sequence2vec: a novel embedding approach for modeling transcription factor binding affinity landscape H Dai, R Umarov, H Kuwahara, Y Li, L Song, X Gao Bioinformatics 33 (22), 3575-3583, 2017	61	2017
Interpretable RNA foundation model from unannotated data for highly accurate RNA structure and function predictions J Chen, Z Hu, S Sun, Q Tan, Y Wang, Q Yu, L Zong, L Hong, J Xiao, ... arXiv preprint arXiv:2204.00300, 2022	57	2022
DeepSimulator1. 5: a more powerful, quicker and lighter simulator for Nanopore sequencing Y Li, S Wang, C Bi, Z Qiu, M Li, X Gao Bioinformatics 36 (8), 2578-2580, 2020	57	2020
Protein–RNA interaction prediction with deep learning: structure matters J Wei, S Chen, L Zong, X Gao, Y Li Briefings in bioinformatics 23 (1), bbab540, 2022	55	2022
Learning to stop while learning to predict X Chen, H Dai, Y Li, X Gao, L Song International conference on machine learning, 1520-1530, 2020	53	2020
DeeReCT-PolyA: a robust and generic deep learning method for PAS identification Z Xia, Y Li, B Zhang, Z Li, Y Hu, W Chen, X Gao Bioinformatics 35 (14), 2371-2379, 2019	52	2019
On the decision boundary of deep neural networks Y Li, L Ding, X Gao arXiv preprint arXiv:1808.05385, 2018	52	2018

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