Enhanced cell deconvolution of peripheral blood using DNA methylation for high-resolution immune profiling

DNA methylation microarrays can be employed to interrogate cell-type composition in complex tissues. Here, we expand reference-based deconvolution of blood DNA methylation to include 12 leukocyte subtypes (neutrophils, eosinophils, basophils, monocytes, naïve and memory B cells, naïve and memory CD4 + and CD8 + T cells, natural killer, and T regulatory cells). Including derived variables, our method provides 56 immune profile variables. The IDOL (IDentifying Optimal Libraries) algorithm was used to identify libraries for deconvolution of DNA methylation data for current and previous platforms. The accuracy of deconvolution estimates obtained using our enhanced libraries was validated using artificial mixtures…

• UD
  U.S. Department of Defense

  Awards: W81XWH, W81XWH-20-1-0778
• DC
  Dartmouth College

  Award: P30 CA023108
• NI
  National Institutes of Health

  Awards: P30 CA023108, P20GM103428, P20 GM130423, P50 CA097257, P30 CA168524, R01 CA207360, P20 GM130454, W81XWH, CA216265, CA168524, P30 DK117469, R01CA253976, CA207360
• JA
  Johnson and Johnson

  Award: 18‐90‐52‐MICH
• NC
  Norris Cotton Cancer Center

  Award: P30 CA023108
• NC
  National Cancer Institute

  Awards: R01CA253976, P30 CA168524, CA097257, CA023108, R01CA216265, CA253976, P20 GM104416, P50 CA097257, P30 CA023108, CA216265, CA168524
• NI
  National Institute of General Medical Sciences

  Awards: P30 CA168524, GM104416, P20 GM130454, GM130423, P20 GM130423, P20 GM104416, P20 GM104416-09/8299, P20GM104416-09/8299
• CD
  Congressionally Directed Medical Research Programs

  Awards: W81XWH-20-1-077, W81XWH-20-1-0778