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. Author manuscript; available in PMC: 2009 Sep 30.
Published in final edited form as: Nature. 2008 May 28;454(7200):49–55. doi: 10.1038/nature07056

Figure 2. Chromatin state maps.

Figure 2

a, Loss of H3K4me3 correlates with inactivation of MEF-specific low-CpG promoters (LCPs), such as that of Postn (periostin), during reprogramming. b, The transcription factor Zeb2 is marked by H3K4me3 and expressed in MEFs, but gains H3K27me3 and is silenced in partially and fully reprogrammed cells. c, The mesoderm/neural-crest transcription factor Sox9 is marked by H3K4me3 only and remains active in MCV6. d, The endodermal transcription factor Gata6 inappropriately lost H3K27me3 and is activated in MCV6 cells. e, The autocrine growth factor Fgf4 loses H3K27me3, gains H3K4me3 and becomes highly expressed in both partially and fully reprogrammed cells. f, The pluripotency gene Nanog gains H3K4me3 and is active only in iPS cells. g, The germline-specific gene Ddx4 gains H3K4me3 and H3K27me3 in iPS cells only, and remains poised for activation in germ cells. h, Chromatin states for high-CpG promoters (HCPs) in MEFs and reprogrammed cells, conditional on their state in embryonic stem cells. i, Fraction of genes with HCPs expressed in embryonic stem cells, but not wild-type MEFs, that have been re-activated in cells at various stages of reprogramming, conditional on their chromatin state inMEFs. Most HCPs markedbyH3K27me3 onlyorby neither mark are not re-actived in partially reprogrammed cells. d4, day 4.