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] |