Genome-wide enhancer annotations differ significantly in genomic distribution, evolution, and function

BMC Genomics

Table 1 Summary of all enhancer sets analyzed in this study

Context	Enhancer Set	Number of Base Pairs (kb)	Number of Enhancers	Median Length	Genome Coverage
K562	H3K27acPlusH3K4me1	22,113	6642	1903	0.0078
	H3K27acMinusH3K4me3	34,072	19,698	525	0.0120
	DNasePlusHistone	6620	13,402	431	0.0023
	ChromHMM	96,545	100,837	600	0.0339
	EncodeEnhancerlike	39,961	36,008	878	0.0140
	Ho14	29,027	35,769	556	0.0102
	Yip12	5389	13,303	342	0.0019
	p300	7939	26,463	316	0.0028
	GRO-cap	3905	23,825	160	0.0014
	FANTOM	390	1084	344	0.0001
Gm12878	H3K27acPlusH3K4me1	28,355	8019	2749	0.0099
	H3K27acMinusH3K4me3	20,868	11,238	701	0.0073
	DNasePlusHistone	9286	19,815	386	0.0033
	ChromHMM	73,929	69,314	800	0.0259
	EncodeEnhancerlike	50,224	38,872	1018	0.0176
	Ho14	41,543	39,550	674	0.0146
	Yip12	5389	13,303	342	0.0019
	p300	6480	17,532	360	0.0023
	GRO-cap	3646	21,308	160	0.0013
	FANTOM	1025	2826	343	0.0004
Liver	H3K27acPlusH3K4me1	87,576	37,644	1831	0.0307
	H3K27acMinusH3K4me3	137,874	77,014	1096	0.0484
	DNasePlusHistone	51,292	170,212	152	0.0180
	ChromHMM	108,375	101,260	800	0.0380
	EncodeEnhancerlike	89,129	37,426	1849	0.0313
	FANTOM	326	869	347	0.0001
	Villar15	86,139	27,725	2545	0.0302
Heart	H3K27acPlusH3K4me1	59,892	42,910	1102	0.0210
	H3K27acMinusH3K4me3	157,468	141,162	684	0.0553
	DNasePlusHistone	33,224	103,898	168	0.0117
	ChromHMM	93,067	113,092	600	0.0327
	EncodeEnhancerlike	186,866	47,235	2872	0.0656
	FANTOM	611	1720	335	0.0002

ISSN: 1471-2164