Genomic meta-analysis of the interplay between 3D chromatin organization and gene expression programs under basal and stress conditions

Table 2 Comparison of binding site and epigenetic mark occupancy in A/B compartments between two cell types

(A) CTCF; HMEC–HUVEC	AA	AB	BA	BB	Total	R	p value
HMEC only CTCF BSs	7241	1655	947	4775	14,618	2.34	10⁻¹⁶⁸
HUVEC only CTCF BSs	4516	264	1180	1524	7484
Common CTCF BSs	24,986	2587	4647	9750	41,970

(B) H3K9ac; GM12878-NHEK	AA	AB	BA	BB	Total	R	p value
GM12878 only H3K9ac peaks	14,695	3111	596	1708	20,110	4.54	< 10⁻³⁰⁰
NHEK only H3K9ac peaks	19,997	1401	5949	4154	31,501
Common H3K9ac peaks	21,594	2036	1078	2911	27,619

(C) H3K27me3; MCF7-GM12878	AA	AB	BA	BB	Total	R	p value
MCF7 only H3K27me3 peaks	5213	1751	3637	9712	20,313	0.54	10⁻¹²²
GM12878 only H3K27me3 peaks	7176	1765	1145	3608	13,694
Common H3K27me3 peaks	318	95	118	317	848

ISSN: 1756-8935