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DB or Tool searching for miRNA validated targets in cancer?
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Entering edit mode
12 months ago
Defne • 0

Hi all, I have a list of miRNA and i want to know its validated target in a cancer and the pathways in which implicated. I used miRTarBase and i know there is many web servers but I want to know if there an R package or a tool not complicated (for beginner) to find miRNA validated tagets and recently updated. Thank you

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Entering edit mode
19 months ago

Hi Nesrine, I recommend you to try this resource: https://www.onco.io/ You can find there upto-date mannualy curated mIR targets involved in cancer. ONCO.IO contains more then 5500 highly validated targets . ONCO.IO also contains other interactions TF-->miR, TF-->gene target and PPIs. Regards, Stas

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12 months ago
Republic of Ireland

I don't know about databases specifically for validated targets in a cancer setting; however, there are databases that store both in silico and validated target predictions, though I am not sure on the tissues used in these databases.

For in silico predictions, miRNAtap is a program that I have used to good effect; however, you may find its implementation difficult.

If you want to make your life easier and just look up interactions (validated or predicted) in a GUI, then use miRWalk 2.0.

Kevin

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