Hello everyone. I have performed microrna microarray experiments and determined what micrornas are up or downregulated in my breast samples related to my reference samples. Now I have all this data and I would like to go further and make more analyses, such as pathways networks and disease related analyses. It would be great if you guys could suggest me some online tools. I have used RNA22 and mirwalk for target prediction analyses. mirpath was not useful because not all miRs in my list were considered for analysis, and mir2disease.org and other tools I used to know are not longer available.
ps. I do not have mRNA expression data from my samples.
Regards!
Hi Valentina,
You can use TargetScan to acquire your mRNA target list, then enter your target list into NIH DAVID and subsequently you can choose pathway analyses and gene ontology terms for your genes targeted by your miRs of interest.
Hope this is helpful.
Thanks Phillip. Is targetScan enough to get a mRNA list? I used mirWalk before because it integrates other algorithms in addition to TargetScan. what do you think?
I'm not familiar with mirWalk, but I think TargetScan should be enough to give you a list of mRNAs that you can download as a table or txt file. I don't know if TargetScan integrates other source's algorithms though.
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