CSCD2: an integrated interactional database of cancer-specific circular RNAs. Issue Volume 50:Issue D1(2022) (22nd September 2021)

• Record Type: Journal Article
• Authors: Feng, Jing; Chen, Wenbo; Dong, Xin; Wang, Jun; Mei, Xiangfei; Deng, Jin; Yang, Siqi; Zhuo, Chenjian; Huang, Xiaoyu; Shao, Lin; Zhang, Rongyu; Guo, Jing; Ma, Ronghui; Liu, Juan; Li, Feng; Wu, Ying; Han, Leng; He, Chunjiang
• Is Part Of: Nucleic acids research. Volume 50:Issue D1(2022)
• Page Start: D1179
• Page End: D1183
• Publication Date: 2021-09-22
• Subjects: Nucleic acids -- Periodicals; Molecular biology -- Periodicals; 572.805
• DOI: 10.1093/nar/gkab830
• Languages: English
• ISSNs: 0305-1048

Abstract

Abstract: The significant function of circRNAs in cancer was recognized in recent work, so a well-organized resource is required for characterizing the interactions between circRNAs and other functional molecules (such as microRNA and RNA-binding protein) in cancer. We previously developed cancer-specific circRNA database (CSCD), a comprehensive database for cancer-specific circRNAs, which is widely used in circRNA research. Here, we updated CSCD to CSCD2 (http://geneyun.net/CSCD2 or http://gb.whu.edu.cn/CSCD2 ), which includes significantly more cancer-specific circRNAs identified from a large number of human cancer and normal tissues/cell lines. CSCD2 contains >1000 samples (825 tissues and 288 cell lines) and identifies a large number of circRNAs: 1 013 461 cancer-specific circRNAs, 1 533 704 circRNAs from only normal samples and 354 422 circRNAs from both cancer and normal samples. In addition, CSCD2 predicts potential miRNA–circRNA and RBP–circRNA interactions using binding motifs from >200 RBPs and 2000 microRNAs. Furthermore, the potential full-length and open reading frame sequence of these circRNAs were also predicted. Collectively, CSCD2 provides a significantly enhanced resource for exploring the function and regulation of circRNAs in cancer.