CirGRDB: a database for the genome-wide deciphering circadian genes and regulators. Issue Volume 46:Issue D1(2018) (20th October 2017)

• Record Type: Journal Article
• Authors: Li, Xianfeng; Shi, Leisheng; Zhang, Kun; Wei, Wenqing; Liu, Qi; Mao, Fengbiao; Li, Jinchen; Cai, Wanshi; Chen, Huiqian; Teng, Huajing; Li, Jiada; Sun, Zhongsheng
• Is Part Of: Nucleic acids research. Volume 46:Issue D1(2018)
• Page Start: D64
• Page End: D70
• Publication Date: 2017-10-20
• Subjects: Nucleic acids -- Periodicals; Molecular biology -- Periodicals; 572.805
• DOI: 10.1093/nar/gkx944
• Languages: English
• ISSNs: 0305-1048

Abstract

Abstract: Circadian rhythms govern various kinds of physiological and behavioral functions of the living organisms, and disruptions of the rhythms are highly detrimental to health. Although several databases have been built for circadian genes, a resource for comprehensive post-transcriptional regulatory information of circadian RNAs and expression patterns of disease-related circadian RNAs is still lacking. Here, we developed CirGRDB (http://cirgrdb.biols.ac.cn ) by integrating more than 4936 genome-wide assays, with the aim of fulfilling the growing need to understand the rhythms of life. CirGRDB presents a friendly web interface that allows users to search and browse temporal expression patterns of interested genes in 37 human/mouse tissues or cell lines, and three clinical disorders including sleep disorder, aging and tumor. More importantly, eight kinds of potential transcriptional and post-transcriptional regulators involved in the rhythmic expression of the specific genes, including transcription factors, histone modifications, chromatin accessibility, enhancer RNAs, miRNAs, RNA-binding proteins, RNA editing and RNA methylation, can also be retrieved. Furthermore, a regulatory network could be generated based on the regulatory information. In summary, CirGRDB offers a useful repository for exploring disease-related circadian RNAs, and deciphering the transcriptional and post-transcriptional regulation of circadian rhythms.