Zuo Yuanli, Liu Wenrong, Jin Yang, Pan Yitong, Fan Ting, Fu Xin, Guo Jiawei, Tan Shuangyan, He Juan, Yang Yang, Li Zhang, Yang Chenyu, Peng Yong
Laboratory of Molecular Oncology, Frontiers Science Center for Disease-related Molecular Network, State Key Laboratory of Biotherapy and Cancer Center, West China Hospital, Sichuan University, Chengdu 610064, China.
Bioinform Adv. 2024 Aug 16;4(1):vbae112. doi: 10.1093/bioadv/vbae112. eCollection 2024.
Circular RNAs (circRNAs) play important roles in gene expression and their involvement in tumorigenesis is emerging. circRNA-related database is a powerful tool for researchers to investigate circRNAs. However, existing databases lack advanced platform integrating comprehensive information and analysis tools of cancer-related circRNAs.
We developed a comprehensive platform called CircRNA to Cancer Database (C2CDB), encompassing 318 158 cancer-related circRNAs expressed in tumors and adjacent tissues across 30 types of cancers. C2CDB provides basic details such as sequence and expression levels of circRNAs, as well as crucial insights into biological mechanisms, including miRNA binding, RNA-binding protein interaction, coding potential, base modification, mutation, and secondary structure. Moreover, C2CDB collects an extensive compilation of published literature on cancer circRNAs, extracting and presenting pivotal content encompassing biological functions, underlying mechanisms, and molecular tools in these studies. Additionally, C2CDB offers integrated tools to analyse three potential mechanisms: circRNA-miRNA ceRNA interaction, circRNA encoding, and circRNA biogenesis, facilitating investigators with convenient access to highly reliable information. To enhance clarity and organization, C2CDB has meticulously curated and integrated the previously chaotic nomenclature of circRNAs, addressing the prevailing confusion and ambiguity surrounding their designations.
C2CDB is freely available at http://pengyonglab.com/c2cdb.
环状RNA（circRNA）在基因表达中发挥重要作用，并且它们在肿瘤发生中的作用正在逐渐显现。circRNA相关数据库是研究人员研究circRNA的有力工具。然而，现有的数据库缺乏整合癌症相关circRNA综合信息和分析工具的先进平台。
我们开发了一个名为环状RNA与癌症数据库（C2CDB）的综合平台，涵盖了在30种癌症的肿瘤组织和相邻组织中表达的318158个癌症相关circRNA。C2CDB提供了circRNA的序列和表达水平等基本细节，以及对生物学机制的关键见解，包括miRNA结合、RNA结合蛋白相互作用、编码潜力、碱基修饰、突变和二级结构。此外，C2CDB收集了大量已发表的关于癌症circRNA的文献，提取并呈现了这些研究中包含生物学功能、潜在机制和分子工具的关键内容。此外，C2CDB提供了用于分析三种潜在机制的集成工具：circRNA-miRNA ceRNA相互作用、circRNA编码和circRNA生物合成，方便研究人员获取高度可靠的信息。为了提高清晰度和条理性，C2CDB精心策划并整合了之前混乱的circRNA命名法，解决了围绕其名称普遍存在的混淆和歧义。
