I was working with four different targets predictions methods: TargetScan, RNAhybrid, PITA and miranda. Each method give me a long list of possible targets and I am sure that not all of them are good targets.
Can anybody please suggest me a good statistic method or bioinformatic tool to filter these data.
Thanks in advance.
I have problems with your links. I only can open the first.
Is This your paper?
Activation of a microRNA response in trans reveals a new role for poly(A) in translational repression.
Hello!
You could take all the significant miRs from the different algorithms, Check for the miRs in the intersection of all the predictions. are there any? These are more likely to be good hits. You could add a conservation through evolution filter for this list.
I've read recently about a method to score the outputs from many miR-Target prediction algorithms. It is called "cupid" from Sumazin et al. (Cell, 2011 PMID: 22000015). Unfortunately it is not published yet. It is worth to contact them if they can provide the tool .
Good luck!
Thanks your amiability , I have now a good star point. In some days you will have news and new comments.
Thanks Sachin but my main problem is that some of my organism are not model organism like human or mouse. I suppose that the information of the IPA filter are related only to these model organism. It isn't?
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