CircuitsDB

RNA Type: miRNA

Overview: CircuitsDB is a database of transcriptional regulatory networks involving miRNAs and their targets. The database contains information of particular transcription factors that regulate miRNA and/or coding genes, as well as post-transcriptional networks (miRNA-target gene interaction), identified through a bioinformatic pipeline applied to human and mouse genomes.

Search Methods:

• Keyword: search free keywords including by coding gene name.
• TAG: search by organism, transcription factor, miRNA name (e.g. pre or mature) and gene name.

Source: In house ab initio pipeline (Re et al, 2009), Ensembl database release 46, miRBase v9.2, Transfac database, Xie et al, 2005 data, TargetScan, TargetMiner, Gene Ontology database, list of oncomiRs (Esquela-Kerscher et al, 2006; Zhang et al, 2007; Bandyopadhyay et al, 2010),Cancer Gene Census catalogue, OMIM catalogue, HMDD miRNA-disease database, Tarbase, miRecords, TransmiR, Experimental Target data (Zeller et al, 2006), Expression data (

Information Source: In silico annotation.

Information Content: 3'UTR Regions, Annotation, Binding site, Expression, Fee-Forward regulatory loops, Gene, Gene Ontology, Network, Post-transcriptional network, Promoter Regions, Regulatory network, Sequence, Target gene, Tissue, Transcription Factor, Transcriptional network, Wiki.

Reference: Friard et al, 2010

PubmedID: 20731828.

Year: 2010

Multiple search: Yes

Download: FASTA, Other.

Genomic Overview: No

Organism: Homo sapiens (Human), Mus musculus (House Mouse).

Url: http://biocluster.di.unito.it/circuits/