RNAseqDATA: Sample data obtained from example BitSeq output files

In GPrank: Gaussian Process Ranking of Multiple Time Series

Description

The original data was introduced in (Honkela et al., 2015) and can be accessed in Gene Expression Omnibus (GEO) database (www.ncbi.nlm.nih.gov/geo) with accession no. GSE62789.

Usage

data(RNAseqDATA)

Format

An object of class list of length 3.

Details

This data set contains mean and standard deviation information on the expression levels of 5 transcripts (which were originated from 2 genes) at 10 time points (0, 5, 10, 20, 40, 80, 160, 320, 640, 1280 mins) for three settings: 'gene', 'abstr' (absolute transcript), and 'reltr' (relative transcript) expression levels. In addition, the fields 'gene_mapping' and 'time_mapping' includes information which is useful to match the genes with transcripts and the time points with data files, respectively.

References

Antti Honkela, Jaakko Peltonen, Hande Topa, Iryna Charapitsa, Filomena Matarese, Korbinian Grote, Hendrik G. Stunnenberg, George Reid, Neil D. Lawrence, Magnus Rattray. Genome-wide modeling of transcription kinetics reveals patterns of RNA production delays. PNAS 112(42):13115-13120, 2015.

Examples

data(RNAseqDATA)
gpData=RNAseqDATA$gene
gpData=RNAseqDATA$abstr
gpData=RNAseqDATA$reltr

GPrank documentation built on May 2, 2019, 3:35 p.m.