Human pancreatic islet bulk RNA-seq example dataset

A full human pancreatic islet bulk RNA-seq SummarizedExperiment derived from a brefeldin A perturbation study. The object keeps all samples from the published islet arm and stores a symbol-level count matrix that can be used directly in bulk DE and deconvolution examples together with the bundled panc8_sub reference.

Format

A SummarizedExperiment object with 19876 genes and 8 bulk RNA-seq samples.

Source

Derived from GSE152615. The bundled object is built from the supplementary matrix GSE152615_Rawcounts_filtered.txt.gz. The published non-integer count values are rounded to the nearest integer for count-based example workflows.

Examples

data(islet_bulk)
SummarizedExperiment::assayNames(islet_bulk)
#> [1] "counts"
head(rownames(islet_bulk))
#> [1] "A1BG"     "A1BG-AS1" "A1CF"     "A2M"      "A2M-AS1"  "A2ML1"   
table(SummarizedExperiment::colData(islet_bulk)$condition)
#> 
#>     bfa control 
#>       4       4