Xue, Dongyu

9 publications

ICML 2025 An All-Atom Generative Model for Designing Protein Complexes Ruizhe Chen, Dongyu Xue, Xiangxin Zhou, Zaixiang Zheng, Xiangxiang Zeng, Quanquan Gu

ICLR 2025 DPLM-2: A Multimodal Diffusion Protein Language Model Xinyou Wang, Zaixiang Zheng, Fei Ye, Dongyu Xue, Shujian Huang, Quanquan Gu

ICML 2025 Designing Cyclic Peptides via Harmonic SDE with Atom-Bond Modeling Xiangxin Zhou, Mingyu Li, Yi Xiao, Jiahan Li, Dongyu Xue, Zaixiang Zheng, Jianzhu Ma, Quanquan Gu

ICML 2025 Elucidating the Design Space of Multimodal Protein Language Models Cheng-Yen Hsieh, Xinyou Wang, Daiheng Zhang, Dongyu Xue, Fei Ye, Shujian Huang, Zaixiang Zheng, Quanquan Gu

ICLR 2025 ProteinBench: A Holistic Evaluation of Protein Foundation Models Fei Ye, Zaixiang Zheng, Dongyu Xue, Yuning Shen, Lihao Wang, Yiming Ma, Yan Wang, Xinyou Wang, Xiangxin Zhou, Quanquan Gu

NeurIPS 2024 Antigen-Specific Antibody Design via Direct Energy-Based Preference Optimization Xiangxin Zhou, Dongyu Xue, Ruizhe Chen, Zaixiang Zheng, Liang Wang, Quanquan Gu

ICMLW 2024 Antigen-Specific Antibody Design via Direct Energy-Based Preference Optimization Xiangxin Zhou, Dongyu Xue, Ruizhe Chen, Zaixiang Zheng, Liang Wang, Quanquan Gu

ICML 2024 Diffusion Language Models Are Versatile Protein Learners Xinyou Wang, Zaixiang Zheng, Fei Ye, Dongyu Xue, Shujian Huang, Quanquan Gu

ICML 2023 Structure-Informed Language Models Are Protein Designers Zaixiang Zheng, Yifan Deng, Dongyu Xue, Yi Zhou, Fei Ye, Quanquan Gu