Drug-target interaction prediction in coronavirus disease 2019 case using deep semi-supervised learning model

Faldi Sulistiawan, Wisnu Ananta Kusuma, Nabila Sekar Ramadhanti, Aryo Tedjo

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

Abstract

Coronavirus disease 2019 (COVID-19) is an infectious disease of the respiratory system that caused a pandemic in 2020. There is still not any effective special treatment to cure it. Drug repositioning is used to find an effective drug for curing new diseases by finding new efficacy of registered drug. The new efficacy can be conducted by elaborating the interactions between compounds and proteins (DTI). Deep Semi-Supervised Learning (DSSL) is used to overcome the lack of DTI information. DSSL utilizes unsupervised learning algorithms such as Stacked Auto Encoder (SAE) as pre-training for initializing weights on the Deep Neural Network (DNN). This study uses DSSL with a feature-based chemogenomics approach on the data resulted from the exploration of potential anti-coronavirus treatment. This study finds that the use of fingerprints for compound features and Dipeptide Composition (DC) for protein features gives the best results on accuracy (0.94), recall (0.83), precision (0.817), F-measure (0.822), and AUROC (0.97). From the test data predictions, 1766 and 929 positive interactions are found on the test data and herbal compounds, respectively.

Original languageEnglish
Title of host publication2020 International Conference on Advanced Computer Science and Information Systems, ICACSIS 2020
PublisherInstitute of Electrical and Electronics Engineers Inc.
Pages83-88
Number of pages6
ISBN (Electronic)9781728192796
DOIs
Publication statusPublished - 17 Oct 2020
Event12th International Conference on Advanced Computer Science and Information Systems, ICACSIS 2020 - Virtual, Depok, Indonesia
Duration: 17 Oct 202018 Oct 2020

Publication series

Name2020 International Conference on Advanced Computer Science and Information Systems, ICACSIS 2020

Conference

Conference12th International Conference on Advanced Computer Science and Information Systems, ICACSIS 2020
CountryIndonesia
CityVirtual, Depok
Period17/10/2018/10/20

Keywords

  • Coronavirus disease 2019
  • Deep neural network
  • Deep semi-supervised learning
  • Drug repositioning
  • Stacked autoencoder

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