Identification of N6-methylandenosine-related lncRNA for tuberculosis diagnosis in person living with human immunodeficiency virus

• Published in: Tuberculosis (Edinburgh, Scotland) Vol. 140; p. 102337
• Main Authors: Xu, Shaohua, Yuan, Huicheng, Li, Ling, Yang, Kai, Zhao, Liangcun
• Format: Journal Article
• Language: English
• Published: Scotland Elsevier Ltd 01.05.2023
• Subjects: Biomarker; Co-infection; Coinfection - diagnosis; HIV; Humans; Long non-coding RNA; Mycobacterium tuberculosis - genetics; N6-methyladenosine; RNA, Long Noncoding - genetics; Tuberculosis; Tuberculosis - diagnosis; Tuberculosis - genetics; Biomarker; N6-methyladenosine; Tuberculosis; Co-infection; HIV; Long non-coding RNA
• DOI: 10.1016/j.tube.2023.102337
• ISSN: 1472-9792; 1873-281X

Development of a robust diagnostic test for patients co-infected with human immunodeficiency virus and tuberculosis (HIV/TB) is urgently needed. We believe N6-methyladenosine (m6A)- related long non-coding RNA (lncRNAs) from the host blood could be utilized to diagnose patients co-infected with HIV/TB. In this study, differentially expressed analysis, correlation analysis, univariate logistic regression, and logistic regression with least absolute shrinkage and selection operator (LASSO) were performed in RNA-Seq dataset containing of 14 HIV/TB co-infected subjects and 11 HIV mono-infected subjects. In total, five m6A related-lncRNAs with powerful diagnostic significance for HIV/TB co-infection were identified. We then built a deep learning model based on the five m6A related-lncRNAs for accurately discriminating the HIV/TB co-infected patients from HIV mono-infected patients with an accuracy of 92.0%, a sensitivity of 92.9%, a specificity of 90.9%, and an area under the receiver operating characteristic (ROC) curve (AUC) of 0.935. Moreover, the diagnostic performance was validated in an external cohort containing 15 HIV/TB co-infected subjects and 16 HIV mono-infected subjects of whole blood. Overall, the findings showed that deep learning model based on five m6A-related lncRNAs had a worthy diagnostic performance for HIV/TB co-infection, and these diagnostic lncRNAs associated with m6A regulator genes could play a potential role in the pathogenesis of HIV/TB co-infection.