RNAhybrid + svm_light for miRNA target prediction

Question

[Lucrezia]

Hello,

I have miRNA data from a non-model species (fish) and I am trying to identify the putative gene targets of the differentially expressed miRNAs due to my treatment.

From the literature, a common practice seems to get the overlap between the results of TargetScan, Miranda and RNAhybrid + svm_light. After running the three softwares, I am now trying to understand how to use svm_light. I am not familiar with SVM and I can't seem to find any tutorial or clear explanation on how to use svm_light on RNAhybrid results.

Can anyone either point me in the right direction or explain me how to use svm_light?

Thanks!

Answer 1

[bingyanzheng18]

It's a great honor to know that you are also doing mirna target gene prediction for non-model organisms. I also use these three software, but the intersection ratio of the prediction results obtained by the three software is particularly low, I don't know why. Is it convenient to ask you a question