miRNA Target database?

Question

[Buffo]

Hi Everybody,

Somebody knows which is the most complete and updated database for looking miRNA gene-targets (validated targets)? I have tried miRWalk but some results makes me think that is incomplete or outdated. I have hundreds of miRNAs to assign function so I need that the data looks like GSEA files on miRwalk.

Thanks!

[WouterDeCoster]

You are looking for miRNA-mRNA pairs validated using experimental data? I expect that set to be rather limited.

[Buffo]

Yes, it is, but target prediction is even worst and limited I think so.

Answer 1

[Andrzej Zielezinski]

You may want to look at the list of 70 miRNA target prediction resources.

The ranking list includes various information about each database, such as:

1. list of features
2. list of organisms
3. last update
4. citations per year
5. popularity
6. paper & url

Answer 2

[Khader Shameer]

Highly recommend miRTarBase - provides a variety of filtering options including validation status.

[Buffo]

Yes, for my research it was the best, and also it has the last update upon all others databases.

Answer 3

[EagleEye]

Have a look at

1) TargetExpress

2) miRbase

3) miRcode

Answer 4

[lsp03yjh]

You can try the starBase (http://starbase.sysu.edu.cn/) database, it has been updated to decode miRNA-mRNA, miRNA-lncRNA, miRNA-sncRNA, miRNA-circRNA, miRNA-pseudogene, protein-lncRNA inteactions from CLIP-Seq (HITS-CLIP, PAR-CLIP, iCLIP, CLASH) and degradome sequencing data.

starBase also decipher Pan-Cancer Analysis Networks of lncRNAs, miRNAs, ceRNAs and RNA-binding proteins (RBPs) by mining clinical and expression profiles of 14 cancer types (>6000 samples) from The Cancer Genome Atlas (TCGA) Data Portal.

Answer 5

[zizigolu]

http://multimir.ucdenver.edu/