Fig. 1
5hmC levels and distribution in hematopoietic cells. a Proportion of hydroxymethylated sites in the indicated cell types. The number of 5hmC sites for each cell type was obtained following RRHP data analysis; n = 2 for hESC, CB-CD34+ cells and granulocytes; n = 1 for CD4+ T cells, CD19+ B cells and CD14+ monocytes. The mean numbers ± SEM are presented. b Quantification of 5hmC per 1 × 106 nucleotide DNA in hESC (n = 1), CB-CD34+ (n = 2), CD4+ T cells (n = 3), CD19+ B cells (n = 1), CD14+ monocytes (n = 3) and granulocytes (n = 3). Cells were harvested, DNA isolated, hydrolyzed and analyzed for 5hmC using liquid chromatography tandem mass spectrometry (LC/MS/MS). 5hmC levels are normalized relative to 106 nucleosides. Data shown are the mean ± SEM. c Percentage of 5hmC in annotated genomic elements for each indicated cell type. Promoters were defined −1-kb upstream to +100-bp downstream of the transcription start site (TSS); transcription termination site (TTS) indicates a region −100-bp upstream to +1-kb downstream of the TTS. UTR untranslated region. d Relative density of 5hmC in annotated genomic elements for each indicated cell type. The relative density of 5hmC reflects the number of 5hmC encompassed in annotated genomic elements normalized to 105 base pair of the respective element and to a fixed number of 105 5hmC sites