Repurposing Drugs for Alzheimer's Diseases through Link Prediction on Biomedical Literature

Yongkang Xiao, Yu Hou, Huixue Zhou, Gayo Diallo, Marcelo Fiszman, Julian Wolfson, Halil Kilicoglu, You Chen, Hua Xu, William G. Mantyh, Rui Zhang

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

Recently, computational drug repurposing has emerged as a promising method for identifying new interventions for diseases. This study predicts novel drugs for Alzheimer's disease (AD) through link prediction on our developed biomedical knowledge graph. We constructed a comprehensive knowledge graph containing AD concepts and various potential interventions, called ADInt, by integrating a dietary supplement (DS) domain knowledge graph, SuppKG, with semantic triples from SemMedDB database. Four knowledge graph embedding models (TransE, RotatE, DistMult and ComplEX) and two graph convolutional network models (R-GCN and CompGCN) were compared to learn the representation of ADInt. R-GCN outperformed other models by evaluating on the time slice test set and the clinical trial test set, and was used to generate the score tables for the link prediction task. According to the results of link prediction, we proposed candidate drugs for AD. In conclusion, we presented a novel methodology to extend an existing knowledge graph and discover novel drugs for AD. Our method can potentially be applied to other clinical problems, such as discovering drug adverse reactions and drug-drug interactions.

Original languageEnglish (US)
Title of host publicationProceedings - 2023 IEEE 11th International Conference on Healthcare Informatics, ICHI 2023
PublisherInstitute of Electrical and Electronics Engineers Inc.
Pages750-752
Number of pages3
ISBN (Electronic)9798350302639
DOIs
StatePublished - 2023
Event11th IEEE International Conference on Healthcare Informatics, ICHI 2023 - Houston, United States
Duration: Jun 26 2023Jun 29 2023

Publication series

NameProceedings - 2023 IEEE 11th International Conference on Healthcare Informatics, ICHI 2023

Conference

Conference11th IEEE International Conference on Healthcare Informatics, ICHI 2023
Country/TerritoryUnited States
CityHouston
Period6/26/236/29/23

Keywords

  • Alzheimer's disease
  • biomedical knowledge graph
  • drug repurposing
  • graph embedding
  • link prediction

ASJC Scopus subject areas

  • Artificial Intelligence
  • Computer Science Applications
  • Health Informatics

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