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ASGARD is A Single-cell Guided Pipeline to Aid Repurposing of Drugs

Author

Listed:
  • Bing He

    (University of Michigan)

  • Yao Xiao

    (University of Michigan)

  • Haodong Liang

    (University of Michigan)

  • Qianhui Huang

    (University of Michigan)

  • Yuheng Du

    (University of Michigan)

  • Yijun Li

    (University of Michigan)

  • David Garmire

    (University of Michigan)

  • Duxin Sun

    (University of Michigan)

  • Lana X. Garmire

    (University of Michigan)

Abstract

Single-cell RNA sequencing technology has enabled in-depth analysis of intercellular heterogeneity in various diseases. However, its full potential for precision medicine has yet to be reached. Towards this, we propose A Single-cell Guided Pipeline to Aid Repurposing of Drugs (ASGARD) that defines a drug score to recommend drugs by considering all cell clusters to address the intercellular heterogeneity within each patient. ASGARD shows significantly better average accuracy on single-drug therapy compared to two bulk-cell-based drug repurposing methods. We also demonstrated that it performs considerably better than other cell cluster-level predicting methods. In addition, we validate ASGARD using the drug response prediction method TRANSACT with Triple-Negative-Breast-Cancer patient samples. We find that many top-ranked drugs are either approved by the Food and Drug Administration or in clinical trials treating corresponding diseases. In conclusion, ASGARD is a promising drug repurposing recommendation tool guided by single-cell RNA-seq for personalized medicine. ASGARD is free for educational use at https://github.com/lanagarmire/ASGARD .

Suggested Citation

  • Bing He & Yao Xiao & Haodong Liang & Qianhui Huang & Yuheng Du & Yijun Li & David Garmire & Duxin Sun & Lana X. Garmire, 2023. "ASGARD is A Single-cell Guided Pipeline to Aid Repurposing of Drugs," Nature Communications, Nature, vol. 14(1), pages 1-14, December.
    • Handle: RePEc:nat:natcom:v:14:y:2023:i:1:d:10.1038_s41467-023-36637-3
    DOI: 10.1038/s41467-023-36637-3
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