Putative enhancer sites in the bovine genome are enriched with variants affecting complex traits

Table 2 Degree of overlap between the sets of bovine enhancers analysed

	VISTA^a (%)	FANTOM5^b (%)	dbSUPER^c (%)	H3K27ac^d (%)	H3K4me3^e (%)
VISTA	100	19.63	71.29	1.89	0.26
FANTOM5	24.92	100	52.18	9.86	3.74
dbSUPER	16.88	9.73	100	4.30	1.43
H3K27ac	0.17	0.70	1.63	100	26.97
H3K4me3	0.07	0.80	1.65	81.66	100

Each value in the table represents the ratio, expressed as a percentage, of the total overlapping base pairs between the two enhancer sets listed in a row and column, relative to the total number of base pairs in the enhancer set listed in the corresponding row
^aVISTA is a database for evolutionarily ultra-conserved sequences between vertebrates
^bFANTOM5 is a database for active enhancers from various human and mouse tissue
^cdDbSUPER is a database for super-enhancers from various human or mouse tissues across multiple studies
^dH3K27ac represents the dataset from the Villar et al. [29] study, which used ChIP-Seq profiling to detect the regions of the bovine genome that contained the histone modification signal H3K27ac from four bulls’ liver tissues
^eH3K4me3 represents the dataset from the Villar et al. [29] study which used ChIP-Seq profiling to detect the regions of the bovine genome that contained the histone modification signal H3K4me3 from four bull’s liver tissues

ISSN: 1297-9686