IDOLOptimizedCpGsCordBlood: IDOL Optimized CpGs for umbilical cord blood DNA methylation...
In immunomethylomics/FlowSorted.CordBloodCombined.450k: Illumina 450k/EPIC data on FACS and MACS umbilical blood cells
Description
Usage
Format
References
Examples
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
1
2
3
#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
1
2
3
#data ("IDOLOptimizedCpGsCordBlood")
#head(IDOLOptimizedCpGsCordBlood)
#See ?estimateCellCounts2 for deconvolution examples
immunomethylomics/FlowSorted.CordBloodCombined.450k documentation built on Jan. 23, 2022, 5:50 p.m.
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Description Usage Format References Examples
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
1 2 3 | #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
1 2 3 | #data ("IDOLOptimizedCpGsCordBlood")
#head(IDOLOptimizedCpGsCordBlood)
#See ?estimateCellCounts2 for deconvolution examples
|
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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