Additional file 2.

Figure S1: Expression of marker genes in the purified cell populations. Expression of a set of marker genes, derived from Affimetrix micro-array experiments, in the three sorted cell populations. Figure S2: Mapping statistics. Statistics on the high-throughput sequencing described in this manuscript. Figure S3: TSS methylation and gene expression in the SI. Figure showing genome browser view of different genes. Figure S4: No changes in HMR distribution or expression of transposons. Figure showing the lack of HMR distribution at transposons. Figure S5: Two examples of confirmation of DMRs called between the methylomes. Manual BS-Seq conformation of two DMRs called in the methylomes. Figure S6: Additional ChIP-qPCR and ChIP-Seq analysis. Chip-qPCR and Chip-seq analysis of the DMRs called between SI stem cells and villus. Figure S7: 4C domainograms of three intergenic DMRs. Additional 4C experiments performed on DMRs called between SI stem cells and villus. Figure S8: A role for TCF4 in DMR formation. Additional data implication TCF4 in DMR formation in the SI.

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Kaaij et al. Genome Biology 2013 14:R50   doi:10.1186/gb-2013-14-5-r50