1. RNA-Seq Data-Mining Allows the Discovery of Two Long Non-Coding RNA Biomarkers of Viral Infection in Humans.
- Author
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Barral-Arca R, Gómez-Carballa A, Cebey-López M, Currás-Tuala MJ, Pischedda S, Viz-Lasheras S, Bello X, Martinón-Torres F, and Salas A
- Subjects
- Adult, Asian People, Biomarkers blood, Biomarkers metabolism, Child, Preschool, Data Mining, Down-Regulation, Endothelial Cells microbiology, Escherichia coli Infections genetics, Escherichia coli Infections metabolism, Fibroblasts microbiology, Human Umbilical Vein Endothelial Cells, Humans, Influenza, Human genetics, Influenza, Human metabolism, Machine Learning, Mexico, Monocytes microbiology, Monocytes virology, RNA, Long Noncoding genetics, RNA, Long Noncoding metabolism, RNA-Seq, Rotavirus Infections genetics, Rotavirus Infections metabolism, Varicella Zoster Virus Infection genetics, Varicella Zoster Virus Infection metabolism, Virus Diseases genetics, White People, Endothelial Cells metabolism, Fibroblasts metabolism, Monocytes metabolism, RNA, Long Noncoding blood, Virus Diseases metabolism
- Abstract
There is a growing interest in unraveling gene expression mechanisms leading to viral host invasion and infection progression. Current findings reveal that long non-coding RNAs (lncRNAs) are implicated in the regulation of the immune system by influencing gene expression through a wide range of mechanisms. By mining whole-transcriptome shotgun sequencing (RNA-seq) data using machine learning approaches, we detected two lncRNAs (ENSG00000254680 and ENSG00000273149) that are downregulated in a wide range of viral infections and different cell types, including blood monocluclear cells, umbilical vein endothelial cells, and dermal fibroblasts. The efficiency of these two lncRNAs was positively validated in different viral phenotypic scenarios. These two lncRNAs showed a strong downregulation in virus-infected patients when compared to healthy control transcriptomes, indicating that these biomarkers are promising targets for infection diagnosis. To the best of our knowledge, this is the very first study using host lncRNAs biomarkers for the diagnosis of human viral infections.
- Published
- 2020
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