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Identification of reduced host transcriptomic signatures for tuberculosis disease and digital PCR-based validation and quantification.

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journal contribution
posted on 09.04.2021, 08:39 by Harriet D Gliddon, Myrsini Kaforou, Mary Alikian, Dominic Habgood-Coote, Chenxi Zhou, Tolu Oni, Suzanne T Anderson, Andrew J Brent, Amelia C Crampin, Brian Eley, Robert Heyderman, Florian Kern, Paul R Langford, Tom HM Ottenhoff, Martin L Hibberd, Neil French, Victoria J Wright, Hazel M Dockrell, Lachlan J Coin, Robert J Wilkinson, Michael Levin, ILULU Consortium
Recently, host whole blood gene expression signatures have been identified for diagnosis of tuberculosis (TB). Absolute quantification of the concentrations of signature transcripts in blood have not been reported, but would facilitate diagnostic test development. To identify minimal transcript signatures, we applied a transcript selection procedure to microarray data from African adults comprising 536 patients with TB, other diseases (OD) and latent TB (LTBI), divided into training and test sets. Signatures were further investigated using reverse transcriptase (RT)-digital PCR (dPCR). A four-transcript signature (GBP6, TMCC1, PRDM1, and ARG1) measured using RT-dPCR distinguished TB patients from those with OD (area under the curve (AUC) 93.8% (CI95% 82.2-100%). A three-transcript signature (FCGR1A, ZNF296, and C1QB) differentiated TB from LTBI (AUC 97.3%, CI95%: 93.3-100%), regardless of HIV. These signatures have been validated across platforms and across samples offering strong, quantitative support for their use as diagnostic biomarkers for TB.

Funding

Crick (Grant ID: 10218, Grant title: Wilkinson, R FC001218)

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