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BioMed Research International
Volume 2013, Article ID 785731, 7 pages
Research Article

Integrative Analysis of Methylome and Transcriptome Reveals the Importance of Unmethylated CpGs in Non-CpG Island Gene Activation

Department of Microbiology and Molecular Genetics, IMRIC, The Hebrew University-Hadassah Medical School, 91120 Jerusalem, Israel

Received 2 April 2013; Accepted 10 June 2013

Academic Editor: Tosso Leeb

Copyright © 2013 Amichai Marx et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Supplementary Material

In order to strengthen the argument demonstrated in figure 2 we present the cumulative distributions of all bins separated according to CMepG count, CUn-MepG and CMepG percentage in figures S1, S2 and S3 respectively. The same results were obtained also in primary fibroblast cells (Figures S4-S7) and in ES-F cells (Figures S8-S11). The data was also insensitive to the source of the methylome data since we got essentially the same results using a different methylome data (Figures S12-S13). The results were also insensitive to the binning method since using a different binning method gave essentially the same results (Figures S15-S16)

Repeating the experiment using expression data from cells containing either WT levels or KD KDM2a (Blackledge et al., 2010) reveals that KDM2a is not responsible for the higher expression in promoters with many CUn-MepG (Figures S17-S18).

Figure S19 is similar to Figure 4 using 20 bins instead of 10 bins.

  1. Supplementary Material