VirusCircBase: a database of virus circular RNAs

• Published in: Briefings in bioinformatics Vol. 22; no. 2; pp. 2182 - 2190
• Main Authors: Cai, Zena, Fan, Yunshi, Zhang, Zheng, Lu, Congyu, Zhu, Zhaozhong, Jiang, Taijiao, Shan, Tongling, Peng, Yousong
• Format: Journal Article
• Language: English
• Published: England Oxford University Press 22.03.2021; Oxford Publishing Limited (England)
• Subjects: Cancer; Computer applications; Deoxyribonucleic acid; DNA; DNA viruses; Gene sequencing; HIV; Human immunodeficiency virus; Influenza A; Public health; Ribonucleic acid; RNA; RNA viruses; Vector-borne diseases; Viruses; virus–host interaction; RNA-seq; virus; circular RNA; bioinformatics
• ISSN: 1467-5463; 1477-4054
• DOI: 10.1093/bib/bbaa052

Abstract Circular RNAs (circRNAs) are covalently closed long noncoding RNAs critical in diverse cellular activities and multiple human diseases. Several cancer-related viral circRNAs have been identified in double-stranded DNA viruses (dsDNA), yet no systematic study about the viral circRNAs has been reported. Herein, we have performed a systematic survey of 11 924 circRNAs from 23 viral species by computational prediction of viral circRNAs from viral-infection-related RNA sequencing data. Besides the dsDNA viruses, our study has also revealed lots of circRNAs in single-stranded RNA viruses and retro-transcribing viruses, such as the Zika virus, the Influenza A virus, the Zaire ebolavirus, and the Human immunodeficiency virus 1. Most viral circRNAs had reverse complementary sequences or repeated sequences at the flanking sequences of the back-splice sites. Most viral circRNAs only expressed in a specific cell line or tissue in a specific species. Functional enrichment analysis indicated that the viral circRNAs from dsDNA viruses were involved in KEGG pathways associated with cancer. All viral circRNAs presented in the current study were stored and organized in VirusCircBase, which is freely available at http://www.computationalbiology.cn/ViruscircBase/home.html and is the first virus circRNA database. VirusCircBase forms the fundamental atlas for the further exploration and investigation of viral circRNAs in the context of public health.