IlluminaBodymap: Sample RNA-Seq Counts data

In kstammits/rgsepd: Gene Set Enrichment / Projection Displays

Sample RNA-Seq Counts data

Description

A collection of counts datasets from Illumina Human Bodymap 2.0, one sample each for adipose, blood, heart and skeletal_muscle. Four technical replicates are created by downsampling the original Illumina data. Alignment was performed by Ensembl, so the source of this dataset is ftp://ftp.ensembl.org/pub/release-70/bam/homo_sapiens/genebuild . Each of the four Human Bodymap samples are downsampled four times. Read counts are collected with Bedtools CoverageBed and a RefSeq exon annotation.

Usage

data(IlluminaBodymap)

Format

A data frame with 37653 observations on the following 16 variables.

adipose.1

Illumina Human Bodymap 2 'Adipose' sample, downsampled to one-third.

adipose.2

Illumina Human Bodymap 2 'Adipose' sample, downsampled to one-third.

adipose.3

Illumina Human Bodymap 2 'Adipose' sample, downsampled to one-third.

adipose.4

Illumina Human Bodymap 2 'Adipose' sample, downsampled to one-third.

blood.1

Illumina Human Bodymap 2 'Blood' sample, downsampled to one-third.

blood.2

Illumina Human Bodymap 2 'Blood' sample, downsampled to one-third.

blood.3

Illumina Human Bodymap 2 'Blood' sample, downsampled to one-third.

blood.4

Illumina Human Bodymap 2 'Blood' sample, downsampled to one-third.

heart.1

Illumina Human Bodymap 2 'Heart' sample, downsampled to one-third.

heart.2

Illumina Human Bodymap 2 'Heart' sample, downsampled to one-third.

heart.3

Illumina Human Bodymap 2 'Heart' sample, downsampled to one-third.

heart.4

Illumina Human Bodymap 2 'Heart' sample, downsampled to one-third.

skeletal_muscle.1

Illumina Human Bodymap 2 'Skeletal Muscle' sample, downsampled to one-third.

skeletal_muscle.2

Illumina Human Bodymap 2 'Skeletal Muscle' sample, downsampled to one-third.

skeletal_muscle.3

Illumina Human Bodymap 2 'Skeletal Muscle' sample, downsampled to one-third.

skeletal_muscle.4

Illumina Human Bodymap 2 'Skeletal Muscle' sample, downsampled to one-third.

Value

A numeric matrix of read-counts from RNA-Seq, measured at transcripts by coverageBed.

Source

http://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-513/

References

Illumina Human Bodymap 2.0. Ensembl etc.

Examples

data(IlluminaBodymap)
head(IlluminaBodymap,30)

kstammits/rgsepd documentation built on Oct. 13, 2022, 6:43 p.m.