Liang He
Senior Researcher
Selected Papers
- Liang He, Peiran Jin, Yaosen Min, Shufang Xie, Lijun Wu, Tao Qin, Xiaozhuan Liang, Kaiyuan Gao, Yuliang Jiang, Tie-Yan Liu. SFM-Protein: Integrative Co-evolutionary Pre-training for Advanced Protein Sequence Representation. (opens in new tab) arXiv, 2024.
- Weijie Yin*, Zhaoyu Zhang*, Liang He*, Rui Jiang, Shuo Zhang, Gan Liu, Xuegong Zhang, Tao Qin, Zhen Xie. ERNIE-RNA: An RNA Language Model with Structure-enhanced Representations. (opens in new tab) biorxiv, 2024.
- Haoran Sun, Liang He*, Pan Deng*, Guoqing Liu, Haiguang Liu, Chuan Cao, Fusong Ju, Lijun Wu, Tao Qin, Tie-Yan Liu. Accelerating protein engineering with fitness landscape modeling and reinforcement learning. (opens in new tab) bioRxiv, 2023.
- Microsoft Research AI4Science and Microsoft Azure Quantum. The Impact of Large Language Models on Scientific Discovery: a Preliminary Study using GPT-4 (opens in new tab). arXiv, 2023.
- Kaiyuan Gao, Lijun Wu, Jinhua Zhu, Tianbo Peng, Yingce Xia, Liang He, Shufang Xie, Tao Qin, Haiguang Liu, Kun He, Tie-Yan Liu. Pre-training Antibody Language Models for Antigen-Specific Computational Antibody Design (opens in new tab). KDD 2023.
- Yongge Li, Fusong Ju, Zhiyuan Chen, Yiming Qu, Huanhuan Xia, Liang He, Lijun Wu, Jianwei Zhu, Bin Shao, Pan Deng. CREaTor: Zero-shot cis-regulatory pattern modeling with attention mechanisms. (opens in new tab) Genome Biology, 2023.
- Lijun Wu, Chengcan Ying, Jinhua Zhu, Zheng Wu, Liang He, Yingce Xia, Shufang Xie, Tao Qin, Tie-Yan Liu. SPRoBERTa: Protein Embedding Learning with Local Fragment Modeling. (opens in new tab) Briefings in Bioinformatics, 2022.
- Siyuan Liu, Yusong Wang, Tong Wang, Yifan Deng, Liang He, Bin Shao, Jian Yin, Nanning Zheng, Tie-Yan Liu. Improved Drug-target Interaction Prediction with Intermolecular Graph Transformer. (opens in new tab) Briefings in Bioinformatics, 2022.
- Liang He, Shizhuo Zhang, Lijun Wu, Huanhuan Xia, Fusong Ju, He Zhang, Siyuan Liu, Yingce Xia, Jianwei Zhu, Pan Deng, Bin Shao, Tao Qin, Tie-Yan Liu. Pre-training Co-evolutionary Protein Representation via A Pairwise Masked Language Model (opens in new tab). arXiv preprint arXiv:2110.15527, 2021.
- He Zhang, Fusong Ju, Jianwei Zhu, Liang He, Bin Shao, Nanning Zheng, Tie-Yan Liu. Co-evolution Transformer for Protein Contact Prediction (opens in new tab). NeurIPS 2021.
- Wentao Xu, Shun Zheng, Liang He, Bin Shao, Jian Yin, Tie-Yan Liu. SEEK: Segmented Embedding of Knowledge Graphs (opens in new tab). ACL 2020.
- Jingping Liu, Yanghua Xiao, Ao Wang, Liang He, Bin Shao. CapableOf reasoning: A step towards commonsense oracle (opens in new tab). SIGIR 2020.
- Liang He, Bin Shao, Yatao Li, Huanhuan Xia, Yanghua Xiao, Enhong Chen, Liang Jeff Chen. Stylus: A Strongly-Typed Store for Serving Massive RDF Data (opens in new tab). PVLDB 2018.
- Liang He, Bin Shao, Yanghua Xiao, Yatao Li, Tie-Yan Liu, Enhong Chen, Huanhuan Xia. Neurally-Guided Semantic Navigation in Knowledge Graph (opens in new tab). Transaction on Big Data, 2018.