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MeSH Disease

HGNC Genes

SARS-CoV-2 proteins

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    Blood transcriptional biomarkers of acute viral infection MESHD for detection of pre-symptomatic SARS-CoV 2 infection MESHD

    Authors: Rishi K Gupta; Joshua Rosenheim; Lucy C K Bell; Aneesh Chandran; Jose Afonso Guerra-Assuncao; Gabriele Pollara; Matthew Whelan; Jessica Artico; George Joy; Hibba Kurdi; Daniel M Altmann; Rosemary Boyton; Mala Maini; Aine McKnight; Jonathan Lambourne; Teresa Cutino-moguel; Charlotte Manisty; Thomas Alexander Treibel; James Moon; Benjamin Chain; Mahdad Noursadeghi; - The COVIDsortium Investigators

    doi:10.1101/2021.01.18.21250044 Date: 2021-01-20 Source: medRxiv

    We hypothesised that host-response biomarkers of viral infections may contribute to early identification of SARS-CoV-2 infected MESHD individuals, critical to breaking chains of transmission. We identified 20 candidate blood transcriptomic signatures of viral infection MESHD by systematic review and evaluated their ability to detect SARS-CoV-2 infection MESHD, compared to the gold-standard of virus PCR tests, among a prospective cohort of 400 hospital staff subjected to weekly testing when fit to attend work. The transcriptional signatures had limited overlap, but were mostly co-correlated as components of type 1 interferon responses. We reconstructed each signature score in blood RNA sequencing data from 41 individuals over sequential weeks spanning a first positive SARS-CoV-2 PCR, and after 6-month convalescence. A single blood transcript for IFI27 HGNC provided the highest accuracy for discriminating individuals at the time of their first positive viral PCR result from uninfected controls, with area under the receiver operating characteristic curve (AUROC) of 0.95 (95% confidence interval 0.91-0.99), sensitivity 0.84 (0.7-0.93) and specificity 0.95 (0.85-0.98) at a predefined test threshold. The test performed equally well in individuals with and without symptoms, correlated with viral load, and identified incident infections one week before the first positive viral PCR with sensitivity 0.4 (0.17-0.69) and specificity 0.95 (0.85-0.98). Our findings strongly support further urgent evaluation and development of blood IFI27 HGNC transcripts as a biomarker for early phase SARS-CoV-2 infection MESHD, for screening individuals such as contacts of index cases, in order to facilitate early case isolation and early antiviral treatments as they emerge.

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MeSH Disease
HGNC Genes
SARS-CoV-2 Proteins


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