NovershternHematopoieticData {SingleR}R Documentation

Obtain bulk microarray expression for sorted hematopoietic cells

Description

Download and cache the normalized expression values of 211 bulk human microarray samples of sorted hematopoietic cell populations that can be found in GSE24759.

Usage

NovershternHematopoieticData(ensembl = FALSE)

Arguments

ensembl

Logical scalar indicating whether to convert row names to Ensembl IDs. Genes without a mapping to a non-duplicated Ensembl ID are discarded.

Details

The dataset contains 211 human microarray samples annotated to 16 main cell types:

Samples were additionally annotated to 38 fine cell types:

Value

A SummarizedExperiment object with a "logcounts" assay containing the log-normalized expression values, along with cell type labels in the colData.

Author(s)

Jared Andrews

References

Novershtern N et al. (2011). Densely interconnected transcriptional circuits control cell states in human hematopoiesis. Cell 144, 296-309.

Examples

ref.se <- NovershternHematopoieticData()


[Package SingleR version 1.0.6 Index]