Lists of high, mid, low, and not expressed genes were generated from raw RNA-seq transcript counts of Camk2a-NuTRAP, Aldh1l1-NuTRAP, and Cx3cr1-NuTRAP positive fraction samples. Genes with zero reads for all samples were classified as not expressed, with the remaining genes being split into three equally sized lists for high, mid, and low expressed genes. The R package EnrichedHeatmap was used to intersect methylation call files with genomic coordinates of gene lists according to expression level. The representative plots were generated and statistical analysis performed as described for oxBS-seq analysis.
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