Until recently I relied on the Online microRNA prediction tool which uses the PITA algorithm https://genie.weizmann.ac.il/pubs/mir07/mir07_prediction.html . The Weizmann lab are no longer supporting this site so I am looking for a similarly user friendly site which uses the same algorithm to do some prediction analysis. Anyone got any ideas?
Cheers.
Dear Victoria,
Please be careful in using these sites as there are many of them, however the predictions are less than 50% accurate. The presence of a miR binding sites does not equate to functional regulation. We have used every site available and none of them have been reliable. What we have done is to use new technology to inhibit miR function in cells and animals to understand miR function. This new system is extremely efficient, specific, non-toxic and has no off target effects. With this system you can truly identify genes regulated by specific miRs, even within a cluster. You can either transiently transfect cells, transform cells with lentivirus contracts or make animal models, and this is the only system that can do this level of specificity. Please see https://naturemiri.com.
Thanks all. We all ready have significant functional evidence that our miRNA is inhibiting our gene of interest. We have used the PITA algorithm, along with others, in our prediction analysis in the past and for consistency I would like to use it to analyze subsequent data. Cheers!
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