lncRNA CARINH Regulates Expression and Function of Transcription Factor IRF1 in Macrophages

Human respiratory viruses, such as severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), metapneumovirus (MPV), and influenza A virus (IAV), pose a significant threat to global health. Effective antiviral immunity relies on the production of interferons (IFNs) and the coordinated expression of hundreds of IFN-stimulated genes (ISGs). Long non-coding RNAs (lncRNAs) are increasingly recognized as an important layer of gene regulation within immune response pathways, where lncRNA colitis associated IRF1 antisense regulator of intestinal homeostasis (CARINH) has been shown to be induced by IFN. However, the molecular mechanisms through which the CARINH transcript regulates the IFN response remain unclear.

This study established a role of lncRNA CARINH in regulating the IFN response and ISG transcription upon viral challenge. For the study, mouse bone marrow–derived macrophages from Carinh wild-type mice and Carinh knockout mice and THP-1 macrophages were treated with IFN. This dataset includes RNA and ChIRP sequencing data as well as supplementary data tied to publication. The supplementary data includes data on IncRNAs differentially expressed in MPV, IAV, and SARS-CoV-2 versus healthy controls, rank-sum ordered lncRNA/messenger RNA pairs in MPV, IAV, and SARS-CoV-2, Pearson correlation of messenger RNA and lncRNA, and oligonucleotides used in this study.