A Matrix Factorization-based Drug-virus Link Prediction Method for SARS-CoV-2 Drug Prioritization

Yutong Li, Xiaorui Xu, Sophia Tsoka*

*Corresponding author for this work

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

1 Citation (Scopus)
32 Downloads (Pure)

Abstract

Matrix factorization (MF) has been widely used in drug discovery for link prediction, which aims to reveal new drug-target links by integrating drug-drug and target-target similarity information with a drug-target interaction matrix. The MF method is based on the assumption that similar drugs share similar targets and vice versa. However, one major disadvantage is that only one similarity metric is used in MF models, which is not enough to represent the similarity between drugs or targets. In this work, we develop a similarity fusion enhanced MF model to incorporate different types of similarity for novel drug-target link prediction. We apply the proposed model on a drug-virus association dataset for anti-COVID drug prioritization, and compare the performance with other existing MF models developed for COVID. The results show that the similarity fusion method can provide more useful information for drug-drug and virus-virus similarity and hence improve the performance of MF models. The top 10 drugs as prioritized by our model are provided, together with supporting evidence from literature.

Original languageEnglish
Title of host publicationLecture Notes in Computer Science
EditorsGiuseppe Nicosia, Giovanni Giuffrida, Varun Ojha, Emanuele La Malfa, Gabriele La Malfa, Panos Pardalos, Giuseppe Di Fatta, Renato Umeton
Pages35-47
Number of pages13
DOIs
Publication statusE-pub ahead of print - 9 Mar 2023
EventThe 8th International Conference on Machine Learning, Optimization, and Data Science: An Interdisciplinary Conference: Deep Learning, Optimization, Big Data & Artificial Intelligence without Borders - Certosa di Pontignano, Siena, Italy
Duration: 18 Sept 202222 Sept 2022
Conference number: 8
https://lod2022.icas.cc/

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume13810 LNCS
ISSN (Print)0302-9743
ISSN (Electronic)1611-3349

Conference

ConferenceThe 8th International Conference on Machine Learning, Optimization, and Data Science
Abbreviated titleLOD
Country/TerritoryItaly
CitySiena
Period18/09/202222/09/2022
Internet address

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