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eResearch - Fetch miRBase resources

eResearch - Fetch miRBase resources

Owned by Roberto Barrero Gumiel
Oct 29, 2023

Download Reference microRNA sequences from miRBase

First, let’s download a copy of miRBAse reference sequences, including hairpin and mature microRNA sequences.

microRNA mature sequences:

wget https://mirbase.org/download/mature.fa

Hairpin sequences:

wget https://mirbase.org/download/hairpin.fa

Fetch the genomic coordinated for precursors and mature sequences:

wget https://mirbase.org/download/hsa.gff3

Alternatively, submit the following PBS Pro script to the cluster. Before running the script, create a ‘reference’ folder (i.e., /myteam/data/reference/ ).

#!/bin/bash -l #PBS -N nfsmrnaseq #PBS -l select=1:ncpus=2:mem=4gb #PBS -l walltime=2:00:00 cd $PBS_O_WORKDIR wget https://www.mirbase.org/download/hairpin.fa wget https://www.mirbase.org/download/mature.fa wget https://www.mirbase.org/download/hsa.gff3

 

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