miRTarBase: the experimentally validated microRNA-target interactions database
As a database, miRTarBase has accumulated more than three hundred and sixty thousand miRNA-target interactions (MTIs), which are collected by manually surveying pertinent literature after NLP of the text systematically to filter research articles related to functional studies of miRNAs. Generally, the collected MTIs are validated experimentally by reporter assay, western blot, microarray and next-generation sequencing experiments. While containing the largest amount of validated MTIs, the miRTarBase provides the most updated collection by comparing with other similar, previously developed databases.
1. The word cloud of miRNA-disease information
- Example: hsa-miR-122-5p shows the miRNA was major related to the liver related disease such as hepatocellular carcinoma.
- Example: The miRNA, hsa-miR-15a-5p :: VEGFA, target gene was display in 17 CLIP-seq (HITS-CLIP and PAR-CLIP) data sets generated by 6 independent studies.[17 datasets] [CLIP-seq Viewer]
- Example: hsa-miR-122-5p is a tumor suppressor and targets ALDOA in hepatocellular carcinoma. Also, only hepatocellular carcinoma shows significant negative correlation (P-value=3.9e-7 and R=-0.639) in TCGA data. [9 cancers] [HCC]
If you make use of the data presented here, please cite the following article in addition to the primary data sources:miRTarBase update 2014: an information resource for experimentally validated miRNA-target interactions.
Hsu SD, Tseng YT, Shrestha S, Lin YL, Khaleel Anas, Chou CH, Chu CF, Huang HY, Lin CM, Ho SY, Jian TY, Lin FM, Chang TH, Weng SL, Liao KW, Liao IE, Liu CC and Huang HD. (2014) Nucleic acids research. [ PUBMED ]
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