Question: miRNA quantification on custom database
gravatar for pbigbig
15 months ago by
United States
pbigbig210 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 • 278 views
ADD COMMENTlink written 15 months ago by pbigbig210

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 15 months ago by Buffo1.8k

Thank you, I will check it

ADD REPLYlink written 15 months ago by pbigbig210
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