Detection of COVID-19 Infection from Routine Blood Exams with Machine Learning: A Feasibility Study: Journal of Medical Systems

D. Brinati, A. Campagner, D. Ferrari, M. Locatelli, G. Banfi, F. Cabitza

Research output: Contribution to journalArticlepeer-review

Abstract

The COVID-19 pandemia due to the SARS-CoV-2 coronavirus, in its first 4 months since its outbreak, has to date reached more than 200 countries worldwide with more than 2 million confirmed cases (probably a much higher number of infected), and almost 200,000 deaths. Amplification of viral RNA by (real time) reverse transcription polymerase chain reaction (rRT-PCR) is the current gold standard test for confirmation of infection, although it presents known shortcomings: long turnaround times (3-4 hours to generate results), potential shortage of reagents, false-negative rates as large as 15-20%, the need for certified laboratories, expensive equipment and trained personnel. Thus there is a need for alternative, faster, less expensive and more accessible tests. We developed two machine learning classification models using hematochemical values from routine blood exams (namely: white blood cells counts, and the platelets, CRP, AST, ALT, GGT, ALP, LDH plasma levels) drawn from 279 patients who, after being admitted to the San Raffaele Hospital (Milan, Italy) emergency-room with COVID-19 symptoms, were screened with the rRT-PCR test performed on respiratory tract specimens. Of these patients, 177 resulted positive, whereas 102 received a negative response. We have developed two machine learning models, to discriminate between patients who are either positive or negative to the SARS-CoV-2: their accuracy ranges between 82% and 86%, and sensitivity between 92% e 95%, so comparably well with respect to the gold standard. We also developed an interpretable Decision Tree model as a simple decision aid for clinician interpreting blood tests (even off-line) for COVID-19 suspect cases. This study demonstrated the feasibility and clinical soundness of using blood tests analysis and machine learning as an alternative to rRT-PCR for identifying COVID-19 positive patients. This is especially useful in those countries, like developing ones, suffering from shortages of rRT-PCR reagents and specialized laboratories. We made available a Web-based tool for clinical reference and evaluation (This tool is available at https://covid19-blood-ml.herokuapp.com/). © 2020, Springer Science+Business Media, LLC, part of Springer Nature.
Original languageEnglish
JournalJ. Med. Syst.
Volume44
Issue number8
DOIs
Publication statusPublished - 2020

Keywords

  • Blood tests
  • COVID-19
  • Machine learning
  • Random forest
  • RT-PCR test
  • Three-way
  • alanine aminotransferase
  • aspartate aminotransferase
  • C reactive protein
  • gamma glutamyltransferase
  • lactate dehydrogenase
  • adult
  • Article
  • blood examination
  • coronavirus disease 2019
  • feasibility study
  • female
  • human
  • human cell
  • leukocyte count
  • machine learning
  • major clinical study
  • male
  • respiratory system
  • reverse transcription polymerase chain reaction
  • thrombocyte
  • turnaround time
  • Betacoronavirus
  • Coronavirus infection
  • pandemic
  • procedures
  • real time polymerase chain reaction
  • virus pneumonia
  • Coronavirus Infections
  • Hematologic Tests
  • Humans
  • Machine Learning
  • Pandemics
  • Pneumonia, Viral
  • Real-Time Polymerase Chain Reaction

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