testDNAm: Simulated in-silico mixture DNAm dataset

In aet21/EpiSCORE: Epigenetic cell-type deconvolution with Single-Cell Omic References

Simulated in-silico mixture DNAm dataset

Description

Relatively pure epithelial, endothelial, fibroblast and immune-cell samples, all for which Illumina 450k DNAm profiles are available, were mixed in-silico in known proportions. The DNAm data matrix is defined over 483793 common CpGs and 2 mixture samples. The matrix of mixing fractions defined over 2 samples and the 4 cell-types.

Usage

data(testDNAm)

Format

A matrix representing 2 simulated mixtures of epithelial, endothelial, fibroblast and immune-cell DNAm 450k profiles, with rows labeling CpGs and columns labeling mixtures, with mixture weights specified in another matrix.

Details

Loading the data object, there are two matrices:

• testDNAm.m: The simulated DNAm data matrix.

• trueFrac.m: The true cell-type fractions for all samples.

References

Zhu T, Breeze CE, Beck S, Teschendorff AE Cell-type deconvolution of bulk tissue DNA methylomes from single-cell RNA-Seq data Submitted.

aet21/EpiSCORE documentation built on June 26, 2022, 5:50 p.m.