We also applied our method to a trisomy 21 (Down syndrome) data set
[23 (link)] consisting of 29 total peripheral blood leukocyte samples from Down syndrome cases and 21 controls, as well as 6 T cell samples from cases and 4 T cell samples from controls (GEO Accession number GSE25395). Because of the potential for bias induced by copy number amplification, we excluded 4 CpG sites on Chromosome 21, resulting in m = 96 CpG sites used for analysis. A clustering heatmap displaying the DNA methylation data appears in the Additional file
1 . In one analysis, we compared cases and controls using the total leukocyte samples only, and in another we compared total leukocytes to T cells, pooling cases and controls. The Additional file
1 . presents coefficient estimates.
[23 (link)] consisting of 29 total peripheral blood leukocyte samples from Down syndrome cases and 21 controls, as well as 6 T cell samples from cases and 4 T cell samples from controls (GEO Accession number GSE25395). Because of the potential for bias induced by copy number amplification, we excluded 4 CpG sites on Chromosome 21, resulting in m = 96 CpG sites used for analysis. A clustering heatmap displaying the DNA methylation data appears in the Additional file
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