Public circRNA databases
| Name | circ2Traits10 | nc2Cancer11 | circBase12 | starBase v2.013 | CircNet14 | deepBase v2.015 | CircInteractome16 |
|---|---|---|---|---|---|---|---|
| Website | http://gyanxet-beta.com/circdb/ | http://www.bioinfo.tsinghua.edu.cn/nc2Cancer | http://www.circbase.org/ | http://starbase.sysu.edu.cn | http://circnet.mbc.nctu.edu.tw/ | http://biocenter.sysu.edu.cn/deepBase/ | http://circinteractome.nia.nih.gov |
| CircRNA disease association | 105 Diseases | 31 Cancers | Not available | Not available | Not available | Not available | Not available |
| CircRNA annotation | 1953 Human circRNAs | 172 Human circRNAs | Not available | Not available | 212 950 CircRNAs | 14 867 Human circRNAs | Not available |
| Sequence alignment | Not available | Not available | A web interface of BLAST | Not available | A web interface of BLAST | Not available | Not available |
| CircRNA reference source | circRNA dataset from Memczak et al1 | miR2Disease, miRCancer, HMDD v2.0 and starBase | Back-spliced junction sites in animals reported in 2013 and 2015 | circBase v0.1 | Reported human circRNAs from 2013 to 2015 | NCBI GEO and SRA databases | CircBase, starBase V.2.0, miRBase,17 IRESite18 |
| CircRNA position on genome | A customised genome browser | Not available | Linked out to UCSC Genome Browser | A customised genome browser accessible through keyword search | An integrated genome browser synchronising with the network graphical user interface | A customised genome browser | Linked out to UCSC genome browser |
| CircRNA sample source | Not available | Not available | The samples where the back-spliced junction sites were discovered | circBase v0.1 source samples | 1. In which sample junction sites were discovered. 2. Expression level in available samples. 3. Clustered sample conditions | Not available | Not available |
| CircRNA naming | A serial number for every detected back-spliced junction site | A serial number for every detected back-spliced junction site | A serial number for every detected back-spliced junction site | Same as circBase, except CDR1 antisense (CDR1as) | A systematic naming system which provides information to the source gene and annotated exons of circRNAs | A systematic naming system which provides information to the transcript number | Same as circBase |
| CircRNA expression profiles in samples | Not available | Not available | Not available | Not available | An all-sample expression heat-map for every circRNA and linear isoform | Not available | Not available |
| Address on miRNA regulatory relationships | Identifies circRNA and miRNA interactions | Identifies circRNA and miRNA interactions | Not available | Identifies circRNA and miRNA interactions through Chip-Seq data analysis | A network-driven graphical interface shows the relationship between miRNA target genes and circRNAs | Not available | Identifies circRNA and miRNA interactions |
| RNA-binding protein | Not available | Not available | Not available | Not available | Not available | Not available | Identifies RNA-binding protein |
| circRNA isoforms | Not available | Not available | Not available | Not available | All traceable on the integrated genome browser | All traceable on the integrated genome browser | Not available |