Comprehensive characterization of tissue-specific circular RNAs in the human and mouse genomes

By Si-Yu Xia, Jing Feng, Lijun Lei, Jun Hu, Linjian Xia, Jun Wang, Yu Xiang, Lingjun Liu, Shan Zhong, Leng Han and 1 more. Briefings Bioinform., 2016

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The bioinformatics toolbox for circRNA discovery and analysis (2020, methodology): “Other tools include P_RNA_scaffolder [155], for genome scaffolding using paired-end RNA-Seq data, the outputs of which may recover the structure of both protein-coding genes and circRNAs; Supernmotifs [156], an alignment-free method to visualize and compare the secondary structures of linear or circ”
CircAtlas: an integrated resource of one million highly accurate circular RNAs from 1070 vertebrate transcriptomes (2020, background): “, circBase [17], CIRCpedia v2 [18], circRNADb [19], TSCD [20], CircRiC [21], and MiOncoCirc [7]) have been established to extend the catalog of the annotated circRNAs.”
CSCD: a database for cancer-specific circular RNAs (2017, background): “All information, including the parent gene, sample type, circRNA ID, UCSC genome browser link (45), sample source, genomic coordinates, lncRNA/mRNA annotation, ratio of circRNA/linear RNA, spliced exons, circBase ID, cellular localization, identification algorithm, number of junction reads and log2 ”