Mirna-Target Gene Network

Question

[Mandar]

What bioinformatics analysis can be carried out with human miRNA -target gene network?

[Devon Ryan]

With just a group of putative miRNA targets alone, or do you also have paired expression data?

[Josh Herr]

I'm quite sure there are a lot of possibilities for analysis -- what do you want to do with your data? A more specific question would help us give you more input than an open ended question like this.

[Mandar]

I just have a list of diabetis candidate genes and miRNAs targeting these genes now i want to see the regulation in the network.how to go about it?

[Shicheng Guo]

A new paper come out recently: Improving Bioinformatics Prediction of microRNA Targets by Ranks Aggregation

Answer 1

[Jonathanjacobs]

If you have just miRNA profiling data (small RNA-Seq data perhaps?) the types of analysis is fairly limited since the important piece of the puzzle is the actual effect on the transcriptome (typically). If you have paired expression data from the --same samples--, then I would recommend looking into using Ingenuity Pathway Analysis suite (IPA). Alternatively, if you're on a tight budget and are looking for an open source option - there's a link list page here (http://integrated-analysis.gene-quantification.info) than can get you started.