A Network-Based Embedding Method for Drug-Target Interaction Prediction

Poorya Parvizi, Francisco Azuaje, Evropi Theodoratou, Saturnino Luz

    Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

    3 Citations (Scopus)

    Abstract

    Integration of multi-omics and pharmacological data can help researchers understand the impact of drugs on dynamic biological systems. Network-based approaches to such integration explore the interaction of different cellular components and drugs. However, with ever-increasing amounts of data, processing these high-dimensional biological networks requires powerful tools. We investigate whether network embeddings can address this problem by providing an effective method for dimensionality reduction in drug-related networks. A neural network-based embedding method is employed to encode protein-protein, protein-disease, drug-drug and drug-disease networks for the prediction of novel drug-target interactions. We found that drug-target interaction prediction using embeddings of heterogeneous networks as input features performs comparably to state-of-the-art methods, exhibiting an area under the ROC curve of 84%, outperforming methods such as BLM-NII and NetLapRLS, and coming very close to the best performing network methods such as HNM, CMF and DTINet. These encouraging results suggest that further investigation of this approach is warranted.

    Original languageEnglish
    Title of host publication42nd Annual International Conferences of the IEEE Engineering in Medicine and Biology Society
    Subtitle of host publicationEnabling Innovative Technologies for Global Healthcare, EMBC 2020
    PublisherInstitute of Electrical and Electronics Engineers Inc.
    Pages5304-5307
    Number of pages4
    ISBN (Electronic)9781728119908
    DOIs
    Publication statusPublished - Jul 2020
    Event42nd Annual International Conferences of the IEEE Engineering in Medicine and Biology Society, EMBC 2020 - Montreal, Canada
    Duration: 20 Jul 202024 Jul 2020

    Publication series

    NameProceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS
    Volume2020-July
    ISSN (Print)1557-170X

    Conference

    Conference42nd Annual International Conferences of the IEEE Engineering in Medicine and Biology Society, EMBC 2020
    Country/TerritoryCanada
    CityMontreal
    Period20/07/2024/07/20

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