From: Circular RNAs and their role in renal cell carcinoma: a current perspective
Tool/database name | Important features | Ref |
---|---|---|
Circ2Traits | It contains information of 1951 human circRNAs potentially associated with 105 different diseases. It also stores a putative miRNA-circRNA-mRNA-lncRNA interaction network for all these diseases | [28] |
CircAtlas | It is a comprehensive database that contains 1070 RNA-seq samples from 6 different species with the integration of 1,007,087 circRNAs | [29] |
CircBank | It is a human circRNA database that contains 12,348 conserved circRNAs and 4388 circRNAs with m6A modifications | [30] |
Circbase | merged and unified data sets of circRNAs from multiple species | [31] |
CIRCexplorer3 | A comprehensive pipeline to quantitatively evaluate circRNA expression across samples | [32] |
CircInteractome | A web-based tool for the analysis of circRNAs and their interacting proteins and miRNAs | [33] |
CircNet | It provides tissue-specific circRNA expression profiles and circRNA-miRNA-gene regulatory networks | [34] |
CIRCpedia v2 | An updated database containing 180 RNA-seq datasets for circRNA annotations across 6 different species with computational tools to compare circRNA expression among different samples | [35] |
CircPro | An integrated tool for the identification of circRNAs with protein-coding potential from high-throughput sequencing data | [36] |
CircRNA disease | It provides a user-friendly interface for searching experimentally supported disease-associated circRNAs | [37] |
CircRNADb | A comprehensive database comprising 32,914 non-redundant human exonic circRNAs with protein-encoding feature annotation | [38] |
CircRNAFisher | A circRNA identification pipeline for robust circRNA identification | [39] |
CIRI | A de novo circular RNA identification tool | [40] |
CSCD | A comprehensive cancer-specific circRNA database | [41] |
ExoRBase | It is a database containing 58,330 circRNAs, 15,501 lncRNAs and 18,333 mRNAs characterized from derived from RNA-seq data analyses of human blood exosomes | [42] |
StarBase v2.0 | A tool to identify the RNA–RNA and RNA–protein interactions including miRNAs, ncRNAs (lncRNAs, pseudogenes and circRNAs) | [43] |