Circular RNA databases | Non-coding transcript data analysis
Circular RNAs (circRNAs) represent a new type of regulatory noncoding RNA that only recently has been identified and cataloged. Emerging evidence indicates that circRNAs exert a new layer of post-transcriptional regulation of gene expression.
A comprehensive portal for blood-brain barrier transcriptomics data, obtained by sequencing mRNA (mRNA-seq) and microRNA (miRNA-seq) of polarized hCMEC/D3 cell monolayers. This data encompasses coding (gene expression, alternate splice forms, expressed single nucleotide variants -eSNVs) and non-coding (microRNA, LincRNA, circular RNA) counts that are easily accessible through BBBomics hub database. We also superimposed the RNA-seq coding data on 285 Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways, which include canonical, non-canonical, and/or atypical pathways retrievable using BBBomics hub.
A comprehensive knowledge base of potential association of circular RNAs with diseases in human. Circ2Traits stores information about circRNAs, categorized according to their potential association with diseases, as observed from the genome-wide association study (GWAS) associated single nucleotide polymorphisms (SNPs) and potential interaction with disease associated miRNAs. Users can search by either disease name, or circRNA/miRNA/mRNA/lncRNA identifier, or traits by keyword. The results page will show the circRNAs/miRNAs/mRNAs/lncRNAs potentially associated with disease or traits. Further searching by particular disease name will show the user the whole miRNA-target interaction network for the particular disease. Searching by particular circRNA will show the detailed information about the circRNA.
A database and website where merged and unified data sets of circRNAs and the evidence supporting their expression can be accessed, downloaded, and browsed within the genomic context. circBase also provides scripts to identify known and novel circRNAs in sequencing data. There are three main ways of obtaining data from circBase: simple search, list search and conditional retrieval via table browser.
Gathers long RNA species derived from RNA-seq data analyses of human blood exosomes. exoRBase is a manually curated database which allows integration and visualization of RNA expression profiles spanning normal individuals and patients with different diseases. Besides, users can extract RNAs of interest through customized browsing options. The database includes about 15000 IncRNAs, 18000 mRNAS and 58000 circRNAs.
Provides an integrating view to explore the Tissue-Specific (TS) circRNAs in human and mouse tissues. TSCD is an online resource that includes information for TS circRNAs, such as origination of genomic location, conservation across species and visualization of exons structures. Results provided the information for the features and functions of TS circRNAs, thus benefiting the exploring of new RNA biomarkers in organ development and investigating the transcript process in organ differentiation and development disorders.
Aims to provide a functional circRNA resource including experimentally validated and computationally predicted functions. CircFunBase is based on 7000 manually curated functional circRNA entries, mainly including Homo sapiens, Mus musculus etc. providing the visualization of circRNA-miRNA interaction networks. This tool serves as a more specific functional circRNA resource to efficiently investigate, browse a particular circRNA and provide insights into its function
Provides resources to decode Pan-Cancer and Interaction Networks of lncRNAs, miRNAs, competing endogenous RNAs(ceRNAs), RNA-binding proteins (RBPs) and mRNAs from large-scale CLIP-Seq data and tumor samples. starBase deciphers Protein-RNA and miRNA-target interactions, such as protein-lncRNA, protein-sncRNA, protein-mRNA, protein-pseudogene, miRNA-lncRNA, miRNA-mRNA, miRNA-circRNA, miRNA-pseudogene, miRNA-sncRNA interactions and ceRNA networks from 108 CLIP-Seq datasets.