Putative bovine topological association domains and CTCF binding motifs can reduce the search space for causative regulatory variants of complex traits

Table 3 Rank and fold change of enrichment of significant aseQTLs and eQTLs at putative bovine CTCF binding motifs

QTL type	cell type	P-value significant threshold	Less stringent		More stringent
QTL type	cell type	P-value significant threshold	rank	fold change	rank	fold change
aseQTL	white blood	10⁻⁵	<0.0001	1.54	<0.0001	4.19
		10⁻⁶	<0.0001	1.55	<0.0001	4.07
		10⁻⁷	<0.0001	1.55	<0.0001	4.02
		10⁻⁸	<0.0001	1.56	<0.0001	3.96
	milk	10⁻⁵	<0.0001	1.49	<0.0001	3.97
		10⁻⁶	<0.0001	1.49	<0.0001	3.71
		10⁻⁷	<0.0001	1.49	<0.0001	3.67
		10⁻⁸	<0.0001	1.48	<0.0001	3.61
eQTL	white blood	10⁻⁵	<0.0001	1.38	<0.0001	3.97
		10⁻⁶	<0.0001	1.43	<0.0001	3.56
		10⁻⁷	<0.0001	1.45	<0.0001	2.75
		10⁻⁸	<0.0001	1.47	<0.0001	2.66
	milk	10⁻⁵	<0.0001	1.34	<0.0001	4.48
		10⁻⁶	<0.0001	1.40	<0.0001	4.75
		10⁻⁷	<0.0001	1.38	<0.0001	4.05
		10⁻⁸	<0.0001	1.53	0.9978	3.44

The levels of enrichment of significant allele-specific expression quantitative trait loci (aseQTL) and expression quantitative trait loci (eQTL) from bovine white blood cells and milk cells at two sets of putative bovine CTCF binding motifs are presented. The significance is defined by a P-value less than 10⁻⁵, 10⁻⁶, 10⁻⁷and 10⁻⁸ in aseQTL mapping and eQTL mapping respectively. A less stringent set of putative bovine CTCF binding motifs has motif P-value no larger than 10⁻⁵. A more stringent set of putative bovine CTCF binding motifs has motif P-value no larger than 10⁻⁸ and motif score no smaller than 80

ISSN: 1471-2164