Xinwu Ye headshot

I am a PhD student at Department of Computer Science in The University of Hong Kong, advised by Shenghua Gao, and co-advised by Liangyi Chen. I worked as a research assistant in Gerstein Lab at Yale University from 2024 to 2025. My research interests focus on solving scientific problems with artificial intelligence, with particular emphasis on biomolecule deisgn and large language models.

I am always seeking new research collaborations to tackle challenging problems. Additionally, I am open to discussing technology commercialization and co-founding opportunities. If you see a potential for us to work together, please drop me an email.

Preprints

* represents equal contribution and co-first authorship.

Publications

* represents equal contribution and co-first authorship.

LatentChem: From Textual CoT to Latent Thinking in Chemical Reasoning

Xinwu Ye*, Yicheng Mao*, Jia Zhang, Yimeng Liu, Li Hao, Fang Wu, Zhiwei Li, Yuxuan Liao, Zehong Wang, Zhiyuan Liu, Zhenfei Yin, Li Yuan, Philip Torr, Huan Sun, Xiangxiang Zeng, Mengdi Wang, Le Cong, Shenghua Gao, Xiangru Tang.

ICLR 2026 workshop LIT.

paper code

Tower of Babel in Cross-Cultural Communication: A Case Study of #Give Me a Chinese Name# Dialogues During the “TikTok Refugees” Event

Jielin Feng, Zhibo Yang, Jingyi Zhao, Yujia Li, Xinwu Ye, Xingyu Lan, Siming Chen.

ACM CHI 2026.

paper

InfoAlign: A Human–AI Co-Creation System for Storytelling with Infographics

Jielin Feng, Xinwu Ye, Qianhui Li, Verena Ingrid Prantl, Jun-Hsiang Yao, Yuheng Zhao, Yun Wang, Siming Chen.

ACM CHI 2026.

paper

BC-Design: A Biochemistry-Aware Framework for Inverse Protein Design

Xiangru Tang*, Xinwu Ye*, Fang Wu*, Yimeng Liu, Anna Su, Antonia Panescu, Guanlue Li, Daniel Shao, Dong Xu, Mark Gerstein.

ICML 2025 Workshop GenBio.

paper code

MMSciBench: Benchmarking Language Models on Chinese Multimodal Scientific Problems

Xinwu Ye, Chengfan Li, Siming Chen, Wei Wei, Xiangru Tang.

ACL 2025 Findings.

paper code data

GNNFairViz: Visual Analysis for Graph Neural Network Fairness

Xinwu Ye, Jielin Feng, Erasmo Purificato, Ludovico Boratto, Michael Kamp, Zengfeng Huang, Siming Chen.

IEEE Transactions on Visualization and Computer Graphics (2025).

paper code video

Education

PhD in Computer Science

The University of Hong Kong

2025-present | Hong Kong, China

Master of Finance

Fudan University

2023-2025 | Shanghai, China

Bachelor of Science & Bachelor of Engineering

Shanghai University of Finance and Economics

2019-2023 | Shanghai, China

Professional Service

Reviewer

Journal

IEEE Transactions on Image Processing (TIP), IEEE Transactions on Consumer Electronics (TCE), IEEE Transactions on Circuits and Systems for Video Technology (TCSVT), IEEE Signal Processing Letters (SPL), IEEE Journal of Biomedical and Health Informatics (JBHI), Transactions on Machine Learning Research (TMLR), Journal of Medical Internet Research (JMIR), IEEE Transactions on Aerospace and Electronic Systems (TAES), Applied Intelligence (APIN)

Conference

ICML 2026, ICLR 2026, PacificVis 2026

Workshop

AAMAS 2026 Workshop ASI, ICML 2025 Workshop AI4MATH, COLM 2025 Workshop SoLaR, NeurIPS 2025 Workshop LXAI