Epigenome overlap measure (EPOM) for comparing tissue/cell types based on chromatin states

BMC Genomics

Table 2 Numbers and proportions of enhancer/promoter regions associated with various tissue/cell types

	H3K4me1		H3K27ac		Union of the two HMs
Tissue/cell type	Enhancers	Promoters	Enhancers	Promoters	Enhancers	Promoters
Numbers of associated regions
ESC	43,459	8,852	13,981	4,352	51,666	11,942
iPSC	9,770	1,814	12,079	2,050	20,553	3,697
ES-deriv.	2,242	544	330	79	2,458	598
Blood & T-cell	25,8638	58,525	113,189	35,189	272,139	74,705
HSC & B-cell	29,013	19,855	12,847	9,538	37,371	26,889
Mesench.	242,345	61,975	178,065	64,313	302,647	94,113
Epithelial	4,118	1,243	481	386	4,463	1,614
Neurosph.	13,363	4,614	9,046	4,084	19,202	7,703
Thymus	10,724	2,194	11,158	2,076	18,217	3,800
Brain	152,652	22,362	149,195	30,917	209,745	40,745
Muscle	15,288	3,496	13,166	5,020	23,513	7,416
Heart	3,225	1,098	8,601	3,219	10,458	3,951
Sm. Muscle	38,548	5,386	32,615	6,257	49,460	9,107
Digestive	25,782	4,980	5,528	2,242	28,186	6,563
Other	5	0	0	1	5	1
ENCODE2012	25	13	333	18	55	30
% of associated regions among candidate regions
ESC	1.07	0.63	0.34	0.31	1.27	0.85
iPSC	0.24	0.13	0.30	0.15	0.51	0.26
ES-deriv.	0.06	0.04	0.01	0.01	0.06	0.04
Blood & T-cell	6.38	4.18	2.79	2.51	6.71	5.33
HSC & B-cell	0.72	1.42	0.32	0.68	0.92	1.92
Mesench.	5.97	4.42	4.39	4.59	7.46	6.71
Epithelial	0.10	0.09	0.01	0.03	0.11	0.12
Neurosph.	0.33	0.33	0.22	0.29	0.47	0.55
Thymus	0.26	0.16	0.28	0.15	0.45	0.27
Brain	3.76	1.60	3.68	2.21	5.17	2.91
Muscle	0.38	0.25	0.32	0.36	0.58	0.53
Heart	0.08	0.08	0.21	0.23	0.26	0.28
Sm. Muscle	0.95	0.38	0.80	0.45	1.22	0.65
Digestive	0.64	0.36	0.14	0.16	0.69	0.47
Other	0.00	0.00	0.00	0.00	0.00	0.00
ENCODE2012	0.00	0.00	0.01	0.00	0.00	0.00

ISSN: 1471-2164