MIR-spike-in: Data example
Description
Data from a micro-RNA spike-in experiment, extracted from
scanned images using Agilent Feature Extraction Software.
Usage
data("MIR-spike-in")
data("MIR_RA")
Details
This dataset is derived from a library of synthetic RNA sequences, cor-
responding to human mature miRNAs as well as in-house miRNAs with
particularly similar sequences hybridized on an Agilent Human miRNA Mi-
croarray 2.0. Data consist of a total of 799 miRNA species
(excluding control features) for 4 samples organized in two groups A and
B.
Data, colected with the Agilent Feature Extraction Software, are stored
in a RGList object with the following components:
- MIR\$G: 'gMeanSignal'
- MIR\$Gb: 'gProcessedSignal'
- MIR\$gBGMedianSignal: 'gBGMedianSignal'
- MIR\$targets 'targets'
- MIR\$Row 'Row'
- MIR\$Col 'Column'
- MIR\$ProbeUID 'Probe ID'
- MIR\$genes\$ControlType 'FLAG to specify the sort of feature'
- MIR\$genes\$ProbeName 'Probe Name'
- MIR\$genes\$GeneName 'microRNA Name'
- MIR\$genes\$SystematicName 'microRNA Name'
- MIR\$genes\$Description 'Description (not used)' MIR.RA holds an object of class RA obtained from using
estVC on the example data.
References
Willenbrock H, Salomon J, Barken KIMB, Nielsen FC, Litman T. 2009. Quantitative
miRNA expression analysis: Comparing microarrays with next-generation sequencing.
RNA 15: 2028-2034. Data available from Genome Expression Omnibus (GEO) database under the series accession number
GSE14511