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.
Genomics Proteomics Bioinformatics. 2018 Aug;16(4):226-233. doi: 10.1016/j.gpb.2018.08.001. Epub 2018 Aug 29.
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.
环状 RNA（circRNAs）来自外显子的反向剪接，最近被鉴定为在真核生物中广泛表达，具有组织和物种特异性。尽管大多数 circRNAs 的功能仍不清楚，但一些 circRNAs 被证明在基因表达调控中具有功能，并可能与疾病有关。由于其稳定性，circRNAs 也可用作诊断的生物标志物。通过整合不同样本中的 circRNAs 表达来对其进行分析，从而为 circRNAs 的进一步功能研究及其在临床中的潜在应用提供了分子基础。在这里，我们报告了 CIRCpedia v2，这是一个从六个不同物种的超过 180 个 RNA-seq 数据集综合注释 circRNA 的更新数据库。该图谱允许用户在各种细胞类型/组织中搜索、浏览和下载具有表达特征的 circRNAs，包括疾病样本。此外，更新的数据库还整合了人类和小鼠之间 circRNAs 保守性分析。最后，该网页界面还包含了用于比较样本间 circRNA 表达的计算工具。CIRCpedia v2 可在 http://www.picb.ac.cn/rnomics/circpedia 上访问。
