IDOLOptimizedCpGsCordBlood: IDOL Optimized CpGs for umbilical cord blood DNA methylation...

In immunomethylomics/FlowSorted.Blood.EPIC: Illumina EPIC data on immunomagnetic sorted peripheral adult blood cells

IDOL Optimized CpGs for umbilical cord blood DNA methylation deconvolution

Description

This object is a vector of length 517 consisting of the names of the IDOL optimized CpGs. These CpGs are used as the backbone for deconvolution and were selected because their methylation signature differs across the six normal leukocyte subtypes and the nucleated red blood cells.

Usage

#data ("IDOLOptimizedCpGsCordBlood")
#head(IDOLOptimizedCpGsCordBlood)
#See ?estimateCellCounts2 for deconvolution examples

Format

An object of class "character" of length 517.

The format is: chr [1:517] "cg12603453" "cg24765783" "cg06975018" "cg19708055" ...

References

K Gervin, LA Salas et al. (2019) Systematic evaluation and validation of references and library selection methods for deconvolution of cord blood DNA methylation data. Clin Epigenetics 11,125. doi: 10.1186/s13148-019-0717-y

LA Salas et al. (2018). An optimized library for reference-based deconvolution of whole-blood biospecimens assayed using the Illumina HumanMethylationEPIC BeadArray. Genome Biology 19, 64. doi: 10.1186/s13059-018-1448-7.

DC Koestler et al. (2016). Improving cell mixture deconvolution by identifying optimal DNA methylation libraries (IDOL). BMC bioinformatics. 17, 120. doi: 10.1186/s12859-016-0943-7.

Examples

#data ("IDOLOptimizedCpGsCordBlood")
#head(IDOLOptimizedCpGsCordBlood)
#See ?estimateCellCounts2 for deconvolution examples

immunomethylomics/FlowSorted.Blood.EPIC documentation built on May 24, 2023, 2:22 a.m.