CIRCpedia v2: An Updated Database for Comprehensive Circular RNA Annotation and Expression Comparison

• Published in: Genomics, proteomics & bioinformatics Vol. 16; no. 4; pp. 226 - 233
• Main Authors: Dong, Rui, Ma, Xu-Kai, Li, Guo-Wei, Yang, Li
• Format: Journal Article
• Language: English
• Published: China Elsevier B.V 01.08.2018; CAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institute of Nutrition and Health, Shanghai Institutes for Biological Sciences, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Shanghai 200031, China%CAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institute of Nutrition and Health, Shanghai Institutes for Biological Sciences, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Shanghai 200031, China; School of Life Science and Technology, ShanghaiTech University, Shanghai 201210, China; Elsevier; Oxford University Press
• Subjects: Animals; Back-splicing; CIRCpedia; CircRNA; Circular RNA; Databases, Genetic; Gene Expression Regulation; Humans; Internet; Mice; Molecular Sequence Annotation; RNA - genetics; User-Computer Interface; Database; Circular RNA; Back-splicing; CIRCpedia; CircRNA
• ISSN: 1672-0229; 2210-3244
• DOI: 10.1016/j.gpb.2018.08.001

Circular RNAs (circRNAs) from back-splicing of exon(s) have been recently identified to be broadly expressed in eukaryotes, in tissue- and species-specific manners. Although functions of most circRNAs remain elusive, some circRNAs are shown to be functional in gene expression regulation and potentially relate to diseases. Due to their stability, circRNAs can also be used as biomarkers for diagnosis. Profiling circRNAs by integrating their expression among different samples thus provides molecular basis for further functional study of circRNAs and their potential application in clinic. Here, we report CIRCpedia v2, an updated database for comprehensive circRNA annotation from over 180 RNA-seq datasets across six different species. This atlas allows users to search, browse, and download circRNAs with expression features in various cell types/tissues, including disease samples. In addition, the updated database incorporates conservation analysis of circRNAs between humans and mice. Finally, the web interface also contains computational tools to compare circRNA expression among samples. CIRCpedia v2 is accessible at http://www.picb.ac.cn/rnomics/circpedia.