Skip to main content

Table 1 Summary of the data sets used in this research

From: Improving cell mixture deconvolution by identifying optimal DNA methylation libraries (IDOL)

Biospecimen Name Details N Training or testing GEO ID Description
Whole Blood (WB) AdultMixed Unfractioned peripheral blood leukocytes (PBL) 6 Training GSE77797 DNAm profiling of WB samples collected from 6 different healthy adult donors.
  MethodA Reconstructed cell mixtures 6 Testing GSE77797 DNAm profiled in samples consisting of mixtures of CD4T, CD8T, NK, B cells, Monocytes, and Granulocytes, mixed predetermined proportions
  MethodB Reconstructed cell mixtures 6 Testing GSE77797 DNAm profiled in samples consisting of mixtures of CD4T, CD8T, NK, B cells, Monocytes, and Granulocytes, mixed predetermined proportions
  Liu Unfractioned peripheral blood leukocytes (PBL) 689 Testing GSE42861 DNAm profiled in WB samples collected from n=354 rheumatoid arthritis and n=335non-diseased control patients [16]
  Hannum Unfractioned peripheral blood leukocytes (PBL) 656 Testing GSE40279 DNAm profiled in WB samples collected from a total of 656 adults ranging in age from 19–101 years old [29]
Isolated cell types (Reference set) Granulocytes (Gran) Purified CD16+ cells 6 Both GSE35069 DNAm profiling in purified cell types [3]
  Monocytes (Mono) Purified CD14+ cells 6 Both GSE35069 DNAm profiling in purified cell types [3]
  B cells (Bcell) Purified CD19+ cells 6 Both GSE35069 DNAm profiling in purified cell types [3]
  Natural Killer (NK) Purified CD56+ cells 6 Both GSE35069 DNAm profiling in purified cell types [3]
  CD8T Purified CD3+CD8+ cells 6 Both GSE35069 DNAm profiling in purified cell types [3]
  CD4T Purified CD3+CD4+ cells 6 Both GSE35069 DNAm profiling in purified cell types [3]