Rapid diagnosis of COVID-19 using FT-IR ATR spectroscopy and machine learning.

Publisher: Nature Publishing Group Country of Publication: England NLM ID: 101563288 Publication Model: Electronic Cited Medium: Internet ISSN: 2045-2322 (Electronic) Linking ISSN: 20452322 NLM ISO Abbreviation: Sci Rep Subsets: MEDLINE

Original Publication: London : Nature Publishing Group, copyright 2011-

COVID-19/*diagnosis ; COVID-19 Testing/*methods ; SARS-CoV-2/*isolation & purification ; Spectroscopy, Fourier Transform Infrared/*methods; Adult ; Aged ; Brazil/epidemiology ; COVID-19/epidemiology ; Early Diagnosis ; Female ; Humans ; Least-Squares Analysis ; Machine Learning ; Male ; Middle Aged ; Time Factors

Early diagnosis of COVID-19 in suspected patients is essential for contagion control and damage reduction strategies. We investigated the applicability of attenuated total reflection (ATR) Fourier transform infrared (FTIR) spectroscopy associated with machine learning in oropharyngeal swab suspension fluid to predict COVID-19 positive samples. The study included samples of 243 patients from two Brazilian States. Samples were transported by using different viral transport mediums (liquid 1 or 2). Clinical COVID-19 diagnosis was performed by the RT-PCR. We built a classification model based on partial least squares (PLS) associated with cosine k-nearest neighbours (KNN). Our analysis led to 84% and 87% sensitivity, 66% and 64% specificity, and 76.9% and 78.4% accuracy for samples of liquids 1 and 2, respectively. Based on this proof-of-concept study, we believe this method could offer a simple, label-free, cost-effective solution for high-throughput screening of suspect patients for COVID-19 in health care centres and emergency departments.
(© 2021. The Author(s).)

Erratum in: Sci Rep. 2021 Nov 24;11(1):23153. (PMID: 34819597)

J Biophotonics. 2018 May;11(5):e201700252. (PMID: 29243883)
Clin Oral Investig. 2019 Jul;23(7):3021-3031. (PMID: 30402700)
N Engl J Med. 2020 Feb 20;382(8):727-733. (PMID: 31978945)
J Med Virol. 2020 Jul;92(7):903-908. (PMID: 32219885)
Front Immunol. 2020 Oct 14;11:585354. (PMID: 33163000)
J Biophotonics. 2018 Jul;11(7):e201700372. (PMID: 29512302)
Eur Radiol. 2020 Aug;30(8):4381-4389. (PMID: 32193638)
J Clin Microbiol. 2020 Apr 23;58(5):. (PMID: 32132196)
Biomed Opt Express. 2018 Jan 16;9(2):649. (PMID: 29553144)
Am J Infect Control. 2021 Jan;49(1):21-29. (PMID: 32659413)
J Photochem Photobiol B. 2019 Sep;198:111580. (PMID: 31394353)
Analyst. 2018 Dec 3;143(24):6037-6048. (PMID: 30403209)
Photodiagnosis Photodyn Ther. 2020 Sep;31:101892. (PMID: 32585401)
Photodiagnosis Photodyn Ther. 2020 Sep;31:101890. (PMID: 32585400)
ACS Nano. 2020 Apr 28;14(4):3822-3835. (PMID: 32223179)
Exp Mol Pathol. 2015 Jun;98(3):502-9. (PMID: 25805102)
West J Emerg Med. 2020 Apr 13;21(3):470-472. (PMID: 32302278)
Photodiagnosis Photodyn Ther. 2020 Sep;31:101836. (PMID: 32473399)
Exp Mol Pathol. 2017 Dec;103(3):255-262. (PMID: 29126766)
Int J Oral Sci. 2020 Mar 3;12(1):9. (PMID: 32127517)
Nat Commun. 2019 Oct 8;10(1):4501. (PMID: 31594931)
Biomed Opt Express. 2017 Oct 24;8(11):5218-5227. (PMID: 29188115)
Photodiagnosis Photodyn Ther. 2020 Sep;31:101823. (PMID: 32445960)
Eur Rev Med Pharmacol Sci. 2020 Apr;24(7):4016-4026. (PMID: 32329877)
J Biophotonics. 2018 Mar;11(3):. (PMID: 28949439)
Photodiagnosis Photodyn Ther. 2020 Jun;30:101765. (PMID: 32304912)
Photodiagnosis Photodyn Ther. 2018 Dec;24:237-244. (PMID: 30282049)
Analyst. 2018 Apr 16;143(8):1735-1757. (PMID: 29504623)
J Biophotonics. 2020 May;13(5):e201960094. (PMID: 31999078)
JAMA. 2020 Jun 9;323(22):2249-2251. (PMID: 32374370)
Photodiagnosis Photodyn Ther. 2016 Dec;16:27-34. (PMID: 27491855)
Emerg Microbes Infect. 2020 Dec;9(1):747-756. (PMID: 32196430)

Date Created: 20211012 Date Completed: 20211020 Latest Revision: 20211126

20240628

PMC8505540

10.1038/s41598-021-93511-2

34635702