Qinze Yu

Qinze Yu (余沁泽)

Ph.D. Candidate, CUHK

Email: qinze979@gmail.com

ORCID | Google Scholar | LinkedIn

Biography

I am currently a Ph.D. candidate at the Department of Computer Science and Engineering, The Chinese University of Hong Kong (CUHK), supervised by Prof. Yu Li. Before that, I obtained my Bachelor's degree from UESTC in 2022, supervised by Prof. Xucheng Luo.

Research Interests

AI for Drug Discovery, Molecular Modeling, Deep Learning, Bioinformatics.

I am on the job market in the 2026 Fall cycle. Please feel free to reach out if you think I could be a good fit!

Publications (*equal contribution, #corresponding)

#11

Integrative Multi-Scale Sequence–Structure Modeling for Antimicrobial Peptide Prediction and Design

J. Li, Y. Shao, Y. Li#, Q. Yu#

RECOMB, 2026

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#10

Uncovering evolutionarily remote and highly potent antimicrobial peptides with protein language models

Q. Yu*, H. Liu*, H. Shi*, Y. Abdrakhmanov, J. Shen, C. Zhang, Z. Dong, L. Zong, L. Si, L. Dai#, Y. Li#

Nature Biomedical Engineering, 2026

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#9

Exploring Functional Insights into the Human Gut Microbiome via the Structural Proteome

H. Liu*, J. Shen*, Z. Zhang*, J. Wang*, C. Zhang*, L. Zheng, H. Ni, L. Hong, J. Zhang, D. Xue, J. Chen, Q. Yu, Z. Qu, Y. Ma, T. Si, L. Zheng, S. Wang, C. Jiang, Y. Li#, K. Wang#, L. Dai#

Cell Host & Microbe, 2025

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#8

GS-DTI: A Graph-Structure-Aware Framework Leveraging Large Language Models for Drug–Target Interaction Prediction

Q. Yu, C. Zhou, J. Jiang, X. Shi, Y. Li#

Bioinformatics, 2025

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#7

The MEFIER Score—A Risk Score to Stratify Infective Endocarditis in Patients With Enterococcus faecalis Bacteremia Based on an 11-Year Territory-Wide Cohort

C.K.C. Lai#, E. Leung, A.L.H. Lee, Q. Yu, Y. He, Y. Li, R.K.K. Leung, G.C.Y. Lui, T.C.F. Yip, G.L.H. Wong, A.P.W. Lee, R.H.L. Wong, M. Ip

Open Forum Infectious Diseases, 2025

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#6

Deep generative design of RNA aptamers using structural predictions

F. Wong, D. He, A. Krishnan, L. Hong, A.Z. Wang, J. Wang, Z. Hu, S. Omori, A. Li, J. Rao, Q. Yu, W. Jin, T. Zhang, K. Ilia, J.X. Chen, S. Zheng, I. King, Y. Li#, J.J. Collins#

Nature Computational Science, 2024

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#5

Revisiting the Epitaxial Growth Mechanism of 2D TMDC Single Crystals

C. Li, F. Zheng, J. Min, N. Yang, Y. Chang, H. Liu, Y. Zhang, P. Yang, Q. Yu, Y. Li, Z. Luo, A. Alijarb, K. Shih, J. Huang, L. Li#, Y. Wan#

Advanced Materials, 2024

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#4

A machine learning-based risk score for prediction of infective endocarditis among patients with Staphylococcus aureus bacteraemia - The SABIER score

C. Lai#, E. Leung, Y. He, C-C. Cheung, O. Mui, Q. Yu, T. Li, A. Lee, Y. Li, C-Y. Lui

The Journal of Infectious Diseases, 2024

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#3

Unbiased organism-agnostic and highly sensitive signal peptide predictor with deep protein language model

J. Shen*, Q. Yu*, S. Chen*, Q. Tan, J. Li, Y. Li#

Nature Computational Science, 2023

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#2

Drug Synergistic Combinations Predictions via Large-Scale Pre-Training and Graph Structure Learning

Z. Hu*, Q. Yu*, Y. Guo, T. Wang, I. King, X. Gao#, L. Song#, Y. Li#

RECOMB, 2023

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#1

Session-based Recommendation Via Contrastive Learning On Heterogeneous Graph

H. Li, X. Luo#, Q. Yu, H. Wang

IEEE Bigdata, 2021

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Selected Awards

Intern & Work Experience

Teaching