VirusCircBase: a database of virus circular RNAs
VirusCircBase: a database of virus circular RNAs
复制标题
VirusCircBase：病毒环状 RNA 数据库。
DOI：
10.1093/bib/bbaa052
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发表时间：
2021-03-01
影响因子：
9.5
通讯作者：
Peng, Yousong
中科院分区：
文献类型：
--
作者：
Cai, Zena;Fan, Yunshi;Peng, Yousong
环状RNA（CircRNA）是一类共价闭合的长链非编码RNA，在多种细胞活动和多种人类疾病中起着关键作用。在双链DNA病毒（dsDNA）中发现了多种与癌症相关的病毒circRNA，但目前还没有系统研究。在此，我们通过从病毒感染相关的RNA测序数据中计算预测病毒circRNA，对来自23种病毒的11924个circRNA进行了系统调查。除了dsDNA病毒，我们的研究还揭示了单链RNA病毒和逆转录病毒中的大量circRNA，如寨卡病毒，甲型流感病毒，扎伊尔埃博拉病毒和人类免疫缺陷病毒1。大多数病毒circRNA在反向剪接位点的侧翼序列处具有反向互补序列或重复序列。大多数病毒circRNA仅在特定物种的特定细胞系或组织中表达。功能富集分析表明，来自dsDNA病毒的病毒circRNA参与与癌症相关的KEGG途径。目前研究中呈现的所有病毒circRNA都存储在VirusCircBase中，该数据库可在http://www.computationalbiology.cn/ViruscircBase/home.html上免费获得，是第一个病毒circRNA数据库。VirusCircBase是在公共卫生背景下进一步探索和研究病毒circRNA的基础图谱。
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 f lanking 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.