Hi, I’m Xiang Zhuang (庄祥), a Ph.D. student in Computer Science and Technology at Zhejiang University (浙江大学), advised by Professor Huajun Chen (陈华钧) and Qiang Zhang (张强). I obtained my bachelor’s degree in Software Engineering from Zhejiang University in 2020. My research interests revolve around AI4Science, with a particular focus on the intersection of deep learning and molecule, protein, and single-cell omics.
🔥 News
- 2024.05: 🎉🎉 One paper is accepted by ACL 2024.
- 2024.05: 🎉🎉 Two papers are accepted by ICML 2024.
- 2024.01: We preprint a survey paper about Scientific Large Language Models.
- 2023.09: 🎉🎉 One paper is accepted by NeurIPS 2023.
- 2023.04: 🎉🎉 One paper is accepted by IJCAI 2023.
- 2023.03: 🎉🎉 One paper is accepted by Nature Machine Intelligence.
📝 Publications (* indicates co-first author)
Preprint
- Scientific large language models: A survey on biological & chemical domains
Qiang Zhang, Keyang Ding, Tianwen Lyv, Xinda Wang, Qingyu Yin, Yiwen Zhang, Jing Yu, Yuhao Wang, Xiaotong Li, Zhuoyi Xiang, Xiang Zhuang, Zeyuan Wang, Ming Qin, Mengyao Zhang, Jinlu Zhang, Jiyu Cui, Renjun Xu, Hongyang Chen, Xiaohui Fan, Huabin Xing, Huajun Chen
[paper][code]
Journal
- Knowledge Graph-enhanced Molecular Contrastive Learning with Functional Prompt
Yin Fang, Qiang Zhang, Ningyu Zhang, Zhuo Chen, Xiang Zhuang, Xin Shao, Xiaohui Fan, Huajun Chen
Nature Machine Intelligence (IF=23.8), 2023
[paper][code] - Benchmarking Knowledge-driven Zero-shot Learning
Yuxia Geng, Jiaoyan Chen, Xiang Zhuang, Zhuo Chen, Jeff Z Pan, Juan Li, Zonggang Yuan, Huajun Chen
Journal of Web Semantics, 2023
[paper][code] - De Novo Analysis of Bulk RNA-seq Data at Spatially Resolved Single-cell Resolution
Jie Liao*, Jingyang Qian*, Yin Fang*, Zhuo Chen*, Xiang Zhuang*, Ningyu Zhang, Xin Shao, Yining Hu, Penghui Yang, Junyun Cheng, Yang Hu, Lingqi Yu, Haihong Yang, Jinlu Zhang, Xiaoyan Lu, Li Shao, Dan Wu, Yue Gao, Huajun Chen, Xiaohui Fan
Nature Communications (IF=16.6) (Top 25 Life and Biological Sciences Articles of 2022), 2022
[paper][code] - scDeepSort: a Pre-trained Cell-type Annotation Method for Single-cell Transcriptomics using Deep Learning with a Weighted Graph Neural Network
Xin Shao, Haihong Yang, Xiang Zhuang, Jie Liao, Penghui Yang, Junyun Cheng, Xiaoyan Lu, Huajun Chen, Xiaohui Fan
Nucleic Acids Research (IF=14.9), 2021
[paper][code]
Conference
- StableMask: Refining Causal Masking in Decoder-only Transformer
Qingyu Yin, Xuzheng He, Xiang Zhuang, Yu Zhao, Jianhua Yao, Xiaoyu Shen, Qiang Zhang
ICML, 2024
[paper][code] - Knowledge-aware Reinforced Language Models for Protein Directed Evolution
Yuhao Wang, Qiang Zhang, Ming Qin, Xiang Zhuang, Xiaotong Li, Zhichen Gong, Zeyuan Wang, Yu Zhao, Jianhua Yao, Keyan Ding, Huajun Che
ICML, 2024
[paper][code] - InstructProtein: Aligning Human and Protein Language via Knowledge Instruction
Zeyuan Wang, Qiang Zhang, Keyan Ding, Ming Qin, Xiang Zhuang, Xiaotong Li, Huajun Chen
ACL, 2024
[paper][code] - Enhancing Cross Text-Molecule Learning by Self-Augmentation
Yinuo Jiang, Xiang Zhuang, Keyan Ding, Qiang Zhang, Huajun Chen
ACL Findings, 2024
[paper][code] - Learning Invariant Molecular Representation in Latent Discrete Space
Xiang Zhuang, Qiang Zhang, Keyan Ding, Yatao Bian, Xiao Wang, Jingsong Lv, Hongyang Chen, Huajun Chen
NeurIPS, 2023
[paper][code] - Prompting Meta-Learned Hierarchical Graph Network for Molecular Property Prediction
Xiang Zhuang, Keyan Ding, Yin Fang, Huajun Chen, Qiang Zhang
IEEE MedAI, 2023
[paper][code] - Graph Sampling-based Meta-Learning for Molecular Property Prediction
Xiang Zhuang, Qiang Zhang, Bin Wu, Keyan Ding, Yin Fang, Huajun Chen
IJCAI, 2023
[paper][code] - Molecular Contrastive Learning with Chemical Element Knowledge Graph
Yin Fang, Qiang Zhang, Haihong Yang, Xiang Zhuang, Shumin Deng, Wen Zhang, Ming Qin, Zhuo Chen, Xiaohui Fan, Huajun Chen
AAAI, 2022
[paper][code]
📖 Educations
- 2023.2 - now, Ph.D., Computer science and technology, Zhejiang University.
- 2020.9 - 2023.1, Master, Computer science and technology, Zhejiang University.
- 2016.9 - 2020.7, Undergraduate, Software engineering, Zhejiang University.