C2CDB: an advanced platform integrating comprehensive information and analysis tools of cancer-related circRNAs

• DOI: 10.1093/bioadv/vbae112
• Publication Date: 2024-08-16T22:46:49Z
• Authors: Yuanli Zuo; Wenrong Liu; Yang Jin; Yitong Pan; Ting Fan; Xin Fu; Jiawei Guo; Shuangyan Tan; Juan He; Yang Yang; Zhang Li; Chenyu Yang; Yong Peng

Abstract

Motivation 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.

Results 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.

Availability and implementation C2CDB is freely available at http://pengyonglab.com/c2cdb.