Package 'FlowSorted.DLPFC.450k'

Title: Illumina HumanMethylation Data on Sorted Frontal Cortex Cell Populations
Description: Provides a function to download (and cache locally via BiocFileCache) a data object for the Illumina 450k DNA methylation microarrays. The underlying data is hosted on Zenodo.
Authors: Andrew E Jaffe [aut, cre], Zachary A. Kaminsky [aut]
Maintainer: Andrew E Jaffe <[email protected]>
License: Artistic-2.0
Version: 1.49.2
Built: 2026-10-10 10:44:34 UTC
Source: https://github.com/bioc/FlowSorted.DLPFC.450k

Help Index

Illumina Human Methylation data from 450k on sorted frontal cortex cell populations

Description

This function downloads (once; cached locally afterwards via BiocFileCache) and returns an RGChannelSet containing Illumina 450k DNA methylation measurements on 58 flow-sorted dorsolateral prefrontal cortex samples from non-psychiatric controls from Guintivano et al. 2013. These samples were separated into neuronal (NeuN+) and non-neuronal (NeuN-) cell types. These data can be used by the minfi package to estimate cellular composition from bulk frontal cortex samples. This data may also be useful to individuals as example Illumina 450k data for trying preprocessing methods across a variety of Bioconductor packages.

As of package version 1.49.2, this data is no longer bundled directly with the package; it is hosted on Zenodo (doi:10.5281/zenodo.21998569) and downloaded on first use.

Usage

FlowSorted.DLPFC.450k

Details

The FlowSorted.DLPFC.450k object is based on samples assayed as part of Guintivano et al (2013). Please cite this paper, if the data is used. If you're using this data together with the minfi package, please see the package vignette for details on how to cite that package.

Value

An object of class RGChannelSet.

References

Guintivano J., Aryee M.J., Kaminsky Z.A. A cell epigenotype specific model for the correction of brain cellular heterogeneity bias and its application to age, brain region and major depression. Epigenetics (2013), 8(3):290-302. doi:10.4161/epi.23924.

Examples

library(FlowSorted.DLPFC.450k)
rgset <- FlowSorted.DLPFC.450k