Question: What is the purpose of having reference genome of other species during miRDeep2?
gravatar for nivya.james2016
2.5 years ago by
nivya.james20160 wrote:

Hi all,

I am doing miRNA Seq analysis and I am new to it. I have indexed my genome using bowtie and mapped it. Inorder to identify the known or novel miRNAs, I thought of using miRDeep2 tool.

I read a protocol saying you need mature miRNA of closely related species (eg: Gorilla) for carrying out miRDeep2 tool.

What is the purpose of having mature miRNA of other species and also genome and mature miRNA of species interested??

Thank you in advance.

mirdeep2 mirnaseq • 633 views
ADD COMMENTlink written 2.5 years ago by nivya.james20160

Probably because most of the mature miRNAs described to date, are conserved sequences. One condition to filter probable miRNAs to other short non-codings RNAs is if they (or closely related short sequences) have been described to show some inhibitor activity.

ADD REPLYlink written 2.5 years ago by Buffo1.8k
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