Question: miRNA quantification on custom database
gravatar for pbigbig
7 months ago by
United States
pbigbig200 wrote:

Hi everyone,

At the moment, I have some small-RNA enriched sequencing data from disease samples, read length is around 20-30 bp, tRNA largely dominated the datasets.

Could you please suggest any tool(s) or tutorials for:

  • Extract and assemble for only miRNA or pre-miRNA

  • Identify and quantify miRNA against a custom build database of miRNA

  • Differential expression tools that is tailored for miRNA (if any)

I am totally new to this analyses, so all comments are greatly appreciated! Thank you very much in advance for your help.

mirna rna-seq • 184 views
ADD COMMENTlink written 7 months ago by pbigbig200

I recommend you to read the mirdeep2 article, it is probably one of the most widely used pipeline to analyze smallRNAseq data.

ADD REPLYlink written 7 months ago by Buffo1.8k

Thank you, I will check it

ADD REPLYlink written 7 months ago by pbigbig200
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1832 users visited in the last hour