VALexp: RNA-seq data matrix from ProteinAtlas project

In SEPIRA: Systems EPigenomics Inference of Regulatory Activity

Description

VALexp is a gene expression data matrix with rows (369 genes) and 35 columns (samples from 7 tissue types). This data matrix was obtained from EBI arrayexpress and is part of ProteinAtlas project. It is a very big dataset, so we only used a small subset as an example dataset here.

Usage

data("VALexp")

Format

The format is: num [1:467, 1:200] 0 2.379 0 0.379 5.392 ... - attr(*, "dimnames")=List of 2 ..$ : chr [1:467] "9496" "22797" "7080" "6943" ... ..$ : chr [1:200] "saliva-secreting gland" "lung" "liver" "heart" ...

Source

https://www.ebi.ac.uk/arrayexpress/

Examples

data(VALexp)
## view the first 5 rows and columns
VALexp[1:5,1:5]

Example output

      saliva-secreting gland     lung    liver    heart lymph node
9496               0.0000000 5.504620 0.000000 0.000000   0.000000
22797              2.3785116 4.263034 2.104337 1.536053   6.290940
7080               0.0000000 6.757557 0.000000 0.000000   0.000000
6943               0.3785116 5.429616 1.201634 2.035624   0.000000
28984              5.3923174 7.577429 3.217231 3.378512   4.510962

SEPIRA documentation built on Nov. 8, 2020, 6:33 p.m.