How to analyze miRNA, antisense RNA, new regulon, etc. by RNA sequencing

[jiwu2573]

There are softwares for RNA sequencing analysis for gene expression, novel splice form, SNP and CNV.

I am just wondering how to dig out the miRNA, antisense RNA, new regulon, promoter, and UTR information from RNA sequencing data? Any software for these purposes?

[Melissa]

I don't know any NGS software that can do that. You will probably need one software for each task. To find promoters and UTR, you need to treat those sequences as ESTs and use the normal prediction software.

[rnaNGS]

you can see the deepBase database (http://deepbase.sysu.edu.cn/) for annotating and discovering small and long RNAs from deep sequencing data.