dbSCM2: Database of matched DNAm and gene expression from SCM2

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

Database of matched DNAm and gene expression from SCM2

Description

The integrated and matched DNAm and gene expression datasets are of dimension 13290 genes and 34 samples. Original data derives from the Stem-Cell Matrix compendium-2 (SCM2). The probability matrix is of the same dimension and derives from a 2-state Bayesian Gamma mixture-model giving us the probability of each gene belonging to the expressed state. A final matrix lists statistics for the subset of imputable genes.

Usage

data(dbSCM2)

Format

Four separate matrices containing the integrated matched DNAm and gene expression datasets, the estimated probabilities of expression matrix and a matrix listing the imputable genes.

Details

Upon loading the data object, we find the following:

• intSCM2dnaM.m: the DNAm data matrix

• intSCM2expR.m: the corresponding matched expression matrix

• pEgXscm2.m: the probability matrix of being expressed

• topIntMRscm2.m: a matrix listing the imputable genes

References

Teschendorff AE, Zhu T, Breeze CE, Beck S. Cell-type deconvolution of bulk tissue DNA methylomes from single-cell RNA-Seq data Genome Biol.2020

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