Xiao-Rui Su

38 papers Journal 29Unranked 9
YearRankTypeTitle / Venue / Authors
2026 J jnl
Multi-hop graph structural modeling for cancer-related circRNA-miRNA interaction prediction.
Pattern Recognit.
Mengmeng Wei, Lei Wang, Xiao-Rui Su, Bowei Zhao, Zhuhong You
2026 J jnl
STRAND: Sequence-Conditioned Transport for Single-Cell Perturbations.
CoRR
Boyang Fu, George Dasoulas, Sameer Gabbita, Xiang Li, Shanghua Gao, Xiao-Rui Su, Soumya Ghosh, Marinka Zitnik
2025 J jnl
A bijective inference network for interpretable identification of RNA N6-methyladenosine modification sites.
Pattern Recognit.
Guodong Li, Yue Yang, Dongxu Li, Xiao-Rui Su, Zhi Zeng, Pengwei Hu, Lun Hu
2025 J jnl
Capturing short-range and long-range dependencies of nucleotides for identifying RNA N6-methyladenosine modification sites.
Comput. Biol. Medicine
Guodong Li, Bowei Zhao, Xiao-Rui Su, Yue Yang, Zhi Zeng, Pengwei Hu, Lun Hu
2025 J jnl
DeepHIV: A Sequence-Based Deep Learning Model for Predicting HIV-1 Protease Cleavage Sites.
IEEE Trans. Comput. Biol. Bioinform.
Dongxu Li, Zhenfeng Li, Bowei Zhao, Xiao-Rui Su, Guodong Li, Lun Hu
2025 J jnl
Integrating Transformer and Graph Attention Network for circRNA-miRNA Interaction Prediction.
IEEE J. Biomed. Health Informatics
Mengmeng Wei, Lei Wang, Bo-Wei Zhao, Xiao-Rui Su, Zhu-Hong You, De-Shuang Huang
2025 J jnl
KnowGuard: Knowledge-Driven Abstention for Multi-Round Clinical Reasoning.
CoRR
Xilin Dang, Kexin Chen, Xiao-Rui Su, Ayush Noori, Iñaki Arango, Lucas Vittor, Xinyi Long, Yuyang Du, Marinka Zitnik, Pheng-Ann Heng
2025 J jnl
Knowledge Graph Neural Network With Spatial-Aware Capsule for Drug-Drug Interaction Prediction.
IEEE J. Biomed. Health Informatics
Xiao-Rui Su, Bowei Zhao, Guodong Li, Jun Zhang, Pengwei Hu, Zhuhong You, Lun Hu
2025 J jnl
Multimodal AI predicts clinical outcomes of drug combinations from preclinical data.
CoRR
Yepeng Huang, Xiao-Rui Su, Varun Ullanat, Ivy Liang, Lindsay Clegg, Damilola Olabode, Nicholas Ho, Bino John, Megan Gibbs, Marinka Zitnik
2025 J jnl
Multimodal Medical Code Tokenizer.
CoRR
Xiao-Rui Su, Shvat Messica, Yepeng Huang, Ruth Johnson, Lukas Fesser, Shanghua Gao, Faryad Sahneh, Marinka Zitnik
2025 J jnl
Regulation-aware graph learning for drug repositioning over heterogeneous biological network.
Inf. Sci.
Bo-Wei Zhao, Xiao-Rui Su, Yue Yang, Dong-Xu Li, Guo-Dong Li, Peng-Wei Hu, Zhu-Hong You, Xin Luo, Lun Hu
2025 J jnl
TxAgent: An AI Agent for Therapeutic Reasoning Across a Universe of Tools.
CoRR
Shanghua Gao, Richard Zhu, Zhenglun Kong, Ayush Noori, Xiao-Rui Su, Curtis Ginder, Theodoros Tsiligkaridis, Marinka Zitnik
2024 J jnl
BioKG-CMI: a multi-source feature fusion model based on biological knowledge graph for predicting circRNA-miRNA interactions.
Sci. China Inf. Sci.
Mengmeng Wei, Lei Wang, Yang Li, Zhengwei Li, Bowei Zhao, Xiao-Rui Su, Yu Wei, Zhuhong You
2024 J jnl
Fusing Higher and Lower-Order Biological Information for Drug Repositioning via Graph Representation Learning.
IEEE Trans. Emerg. Top. Comput.
Bo-Wei Zhao, Lei Wang, Pengwei Hu, Leon Wong, Xiao-Rui Su, Bao-Quan Wang, Zhu-Hong You, Lun Hu
2024 J jnl
Motif-Aware miRNA-Disease Association Prediction via Hierarchical Attention Network.
IEEE J. Biomed. Health Informatics
Bo-Wei Zhao, Yi-Zhou He, Xiao-Rui Su, Yue Yang, Guo-Dong Li, Yu-An Huang, Peng-Wei Hu, Zhu-Hong You, Lun Hu
2023 — conf
A Novel Graph Representation Learning Model for Drug Repositioning Using Graph Transition Probability Matrix Over Heterogenous Information Networks.
ICIC (3)
Dong-Xu Li, Xun Deng, Bo-Wei Zhao, Xiao-Rui Su, Guo-Dong Li, Zhu-Hong You, Peng-Wei Hu, Lun Hu
2023 J jnl
Biocaiv: an integrative webserver for motif-based clustering analysis and interactive visualization of biological networks.
BMC Bioinform.
Dong-Xu Li, Peng Zhou, Bo-Wei Zhao, Xiao-Rui Su, Guo-Dong Li, Jun Zhang, Peng-Wei Hu, Lun Hu
2023 J jnl
Incorporating higher order network structures to improve miRNA-disease association prediction based on functional modularity.
Briefings Bioinform.
Yi-Zhou He, Yue Yang, Xiao-Rui Su, Bo-Wei Zhao, Shengwu Xiong, Lun Hu
2023 — conf
Multi-level Subgraph Representation Learning for Drug-Disease Association Prediction Over Heterogeneous Biological Information Network.
ICIC (3)
Bo-Wei Zhao, Xiao-Rui Su, Yue Yang, Dong-Xu Li, Peng-Wei Hu, Zhu-Hong You, Lun Hu
2023 J jnl
Predicting Drug-Target Interactions Over Heterogeneous Information Network.
IEEE J. Biomed. Health Informatics
Xiao-Rui Su, Pengwei Hu, Hai-Cheng Yi, Zhuhong You, Lun Hu
2023 J jnl
iGRLDTI: an improved graph representation learning method for predicting drug-target interactions over heterogeneous biological information network.
Bioinform.
Bo-Wei Zhao, Xiao-Rui Su, Peng-Wei Hu, Yu-An Huang, Zhu-Hong You, Lun Hu
2022 J jnl
A deep learning method for repurposing antiviral drugs against new viruses via multi-view nonnegative matrix factorization and its application to SARS-CoV-2.
Briefings Bioinform.
Xiao-Rui Su, Lun Hu, Zhuhong You, Pengwei Hu, Lei Wang, Bo-Wei Zhao
2022 J jnl
A geometric deep learning framework for drug repositioning over heterogeneous information networks.
Briefings Bioinform.
Bo-Wei Zhao, Xiao-Rui Su, Peng-Wei Hu, Yu-Peng Ma, Xi Zhou, Lun Hu
2022 J jnl
A machine learning framework based on multi-source feature fusion for circRNA-disease association prediction.
Briefings Bioinform.
Lei Wang, Leon Wong, Zheng-Wei Li, Yuan Huang, Xiao-Rui Su, Bo-Wei Zhao, Zhuhong You
2022 J jnl
Attention-based Knowledge Graph Representation Learning for Predicting Drug-drug Interactions.
Briefings Bioinform.
Xiao-Rui Su, Lun Hu, Zhuhong You, Pengwei Hu, Bo-Wei Zhao
2022 J jnl
HINGRL: predicting drug-disease associations with graph representation learning on heterogeneous information networks.
Briefings Bioinform.
Bo-Wei Zhao, Lun Hu, Zhu-Hong You, Lei Wang, Xiao-Rui Su
2022 — conf
MRLDTI: A Meta-path-Based Representation Learning Model for Drug-Target Interaction Prediction.
ICIC (2)
Bo-Wei Zhao, Lun Hu, Pengwei Hu, Zhu-Hong You, Xiao-Rui Su, Dong-Xu Li, Zhan-Heng Chen, Ping Zhang
2022 J jnl
Multi-view heterogeneous molecular network representation learning for protein-protein interaction prediction.
BMC Bioinform.
Xiao-Rui Su, Lun Hu, Zhu-Hong You, Pengwei Hu, Bo-Wei Zhao
2022 J jnl
NSECDA: Natural Semantic Enhancement for CircRNA-Disease Association Prediction.
IEEE J. Biomed. Health Informatics
Lei Wang, Leon Wong, Zhu-Hong You, De-Shuang Huang, Xiao-Rui Su, Bo-Wei Zhao
2022 J jnl
RLFDDA: a meta-path based graph representation learning model for drug-disease association prediction.
BMC Bioinform.
Menglong Zhang, Bo-Wei Zhao, Xiao-Rui Su, Yi-Zhou He, Yue Yang, Lun Hu
2021 — conf
Detection of Drug-Drug Interactions Through Knowledge Graph Integrating Multi-attention with Capsule Network.
ICIC (3)
Xiao-Rui Su, Zhu-Hong You, Hai-Cheng Yi, Bo-Wei Zhao
2021 J jnl
In silico drug repositioning using deep learning and comprehensive similarity measures.
BMC Bioinform.
Hai-Cheng Yi, Zhu-Hong You, Lei Wang, Xiao-Rui Su, Xi Zhou, Tong-Hai Jiang
2021 — conf
Predicting miRNA-Disease Associations via a New MeSH Headings Representation of Diseases and eXtreme Gradient Boosting.
ICIC (3)
Bo-Ya Ji, Zhu-Hong You, Lei Wang, Leon Wong, Xiao-Rui Su, Bo-Wei Zhao
2021 — conf
Protein-Protein Interaction Prediction by Integrating Sequence Information and Heterogeneous Network Representation.
ICIC (3)
Xiao-Rui Su, Zhu-Hong You, Zhan-Heng Chen, Hai-Cheng Yi, Zhen-Hao Guo
2021 J jnl
SANE: A sequence combined attentive network embedding model for COVID-19 drug repositioning.
Appl. Soft Comput.
Xiao-Rui Su, Zhuhong You, Lei Wang, Lun Hu, Leon Wong, Boya Ji, Bo-Wei Zhao
2020 — conf
A Novel Computational Approach for Predicting Drug-Target Interactions via Network Representation Learning.
ICIC (2)
Xiao-Rui Su, Zhu-Hong You, Ji-Ren Zhou, Hai-Cheng Yi, Xiao Li
2020 — conf
A Unified Deep Biological Sequence Representation Learning with Pretrained Encoder-Decoder Model.
ICIC (2)
Hai-Cheng Yi, Zhu-Hong You, Xiao-Rui Su, De-Shuang Huang, Zhen-Hao Guo
2020 — conf
Prediction of LncRNA-Disease Associations Based on Network Representation Learning.
BIBM
Xiao-Rui Su, Zhuhong You, Hai-Cheng Yi