Extended Data Fig. 3

Disruption of PRC2 activity in iMEFs triggers widespread genomic binding of de-repressed homeotic transcription factors. a, Tracks of ATAC-seq performed in the indicated genotypes (chromosome 5: 98,320,001-98,400,000). Red box highlights a peak irreversibly gained following temporary deletion of Ezh2. ATAC, Assay for Transposase-Accessible Chromatin. b, Results of mammalian Hox factors among total known motif search using HOMER software, on the indicated peaks called using SEACR, and with all Ezh2 KO peaks as background. p-values were calculated using a one-sided cumulative binomial distribution test. q-values represent p-values corrected for multiple testing using the Benjamini-Hochberg procedure (a blue bar denotes a q-value > 0.05; a red bar and * denote a q-value < 0.05; and a red bar and ** denote a q-value < 0.005). See also Supplementary Table 2. NS, not significant. c, Normalized RNA-seq counts in iMEF A were averaged among members of each Hox paralogous group 1, 2, 4, 9 and 13, and the fold derepression in Ezh2 rescue versus wild-type was plotted against the expression level in Ezh2 rescue. Hox group 9 and 13 are colored in red to highlight the combination of their high fold upregulation and high expression; other Hox groups are colored in blue. TMM-RPKM, trimmed mean of M-values-reads per kilobase per million. FC, fold change.