Using epigenetic data to estimate immune composition in admixed samples

Methods Enzymol. 2020:636:77-92. doi: 10.1016/bs.mie.2019.07.004. Epub 2019 Aug 1.


Variation in cell-type decomposition can be of interest to changes in biology by themselves, or a confounder in comparing admixed samples with different phenotypes. Here, I present and review various algorithms that may be used for purposes of deconvolving epigenomic data from admixed samples to yield estimates that may be factored into downstream analyses. More specifically, I present a protocol based on an adaptation of the CIBERSORT algorithm, previously developed for gene-expression, to methylation data.

Keywords: DNA methylation; Deconvolution; Epigenetics; Immune composition.

MeSH terms

  • Algorithms
  • DNA Methylation*
  • Epigenesis, Genetic
  • Epigenomics*
  • Gene Expression