This data set is the object return by IsomirDataSeqFromFiles.
It contains miRNA count data from 14 samples: 7 control individuals (pc) and
7 patients with Parkinson's disease in early stage (Pantano et al, 2016).
Use colData to see the experiment design.
data("mirData")
a IsomirDataSeq class.
Data is available from GEO dataset under accession number GSE97285
Every sample was analyzed with seqbuster tool, see http://seqcluster.readthedocs.org/mirna_annotation.html for more details. You can get same files running the small RNA-seq pipeline from https://github.com/bcbio/bcbio-nextgen.
bcbio_nextgen was used for the full analysis.
See raw-data.R to know how to recreate the object.
This script is inside "extra" folder of the package.
Pantano L, Friedlander MR, Escaramis G, Lizano E et al. Specific small-RNA signatures in the amygdala at premotor and motor stages of Parkinson's disease revealed by deep sequencing analysis. Bioinformatics 2016 Mar 1;32(5):673-81. PMID: 26530722
Lorena Pantano, 2018-04-27