miRLAB (version 1.2.2)

DiffExpAnalysis: Differentially expressed analysis

Description

Find the top miRNAs and mRNAs that are differently expression between different conditions, e.g. cancer vs normal

Usage

DiffExpAnalysis(miR1, miR2, mR1, mR2, topkmiR, topkmR, p.miR, p.mR)

Arguments

miR1

the miRNA dataset for condition 1, e.g. cancer

miR2

the miRNA dataset for condition 1, e.g. normal

mR1

the mRNA dataset for condition 1, e.g. cancer

mR2

the mRNA dataset for condition 2, e.g. normal

topkmiR

the maximum number of miRNAs that we would like to extract, e.g. top 50 miRNAs.

topkmR

the maximum number of mRNAs that we would like to extract, e.g. top 2000 mRNAs.

p.miR

cutoff value for adjusted p-values when conducting differentially expressed analysis for miRNAs.

p.mR

cutoff value for adjusted p-values when conducting differentially expressed analysis for mRNAs.

Value

• the dataset that includes differentially expressed miRNAs and mRNAs. columns are miRNAs and mRNAs and rows are samples

References

Smyth, G.K. (2005). Limma: linear models for microarray data. In Bioinformatics and computational biology solutions using R and Bioconductor (pp. 397-420). Springer New York.