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arXiv · 2503.13322

SMPR: A structure-enhanced multimodal drug-disease prediction model for drug repositioning and cold start

Xin Dong·Rui Miao·Suyan Zhang·Shuaibing Jia·Leifeng Zhang·Yong Liang·Jianhua Zhang·Yi Zhun Zhu
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Abstract

Repositioning drug-disease relationships has always been a hot field of research. However, actual cases of biologically validated drug relocation remain very limited, and existing models have not yet fully utilized the structural information of the drug. Furthermore, most repositioning models are only used to complete the relationship matrix, and their practicality is poor when dealing with drug cold start problems. This paper proposes a structure-enhanced multimodal relationship prediction model (SMRP). SMPR is based on the SMILE structure of the drug, using the Mol2VEC method to generate drug embedded representations, and learn disease embedded representations through heterogeneous network graph neural networks. Ultimately, a drug-disease relationship matrix is constructed. In addition, to reduce the difficulty of users' use, SMPR also provides a cold start interface based on structural similarity based on reposition results to simply and quickly predict drug-related diseases. The repositioning ability and cold start capability of the model are verified from multiple perspectives. While the AUC and ACUPR scores of repositioning reach 99% and 61% respectively, the AUC of cold start achieve 80%. In particular, the cold start Recall indicator can reach more than 70%, which means that SMPR is more sensitive to positive samples. Finally, case analysis is used to verify the practical value of the model and visual analysis directly demonstrates the improvement of the structure to the model. For quick use, we also provide local deployment of the model and package it into an executable program.

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Xin Dong, Rui Miao, Suyan Zhang, Shuaibing Jia, Leifeng Zhang, Yong Liang, Jianhua Zhang, Yi Zhun Zhu. 2025-03-17. SMPR: A structure-enhanced multimodal drug-disease prediction model for drug repositioning and cold start. https://arxiv.org/abs/2503.13322

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