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Question: miRNA sequencing alignment
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gravatar for shamsher jagat
2.6 years ago by
shamsher jagat • 590
United States
shamsher jagat • 590 wrote:

i have a rna-seq data and would like to align it against micro RNA human. Can I do it in galaxy. I dont see miRNA as genome in pulldown menu

thanks

Kanwar
mirna • 1.4k views
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modified 2.6 years ago by y.hoogstrate • 460 • written 2.6 years ago by shamsher jagat • 590
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gravatar for y.hoogstrate
2.6 years ago by
y.hoogstrate • 460
Netherlands
y.hoogstrate • 460 wrote:

I think there is no such thing as a miRNA reference genome as they are annotated relative to the organisms reference genome (hg19/hg38). I think the closest and up to date you can get are the hairpin annotations from miRBase >> http://www.mirbase.org/ftp.shtml and download "hairpin.fa"

It will contain miRNAs for any species and you need to filter to obtain those that are Human
ADD COMMENT • link modified 2.6 years ago • written 2.6 years ago by y.hoogstrate • 460
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