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

Table 2 Summary statistics of identifying CTCF binding motifs in the bovine genome

Mammalian CTCF ChIP-Seq sequence			Putative bovine CTCF binding motifs (strand-specific)
Quantity	Width (nt)	Number of motif profiles identified (e ≤ 10⁻⁵)	Set	Quantity	Width (nt)	make up % of bovine genome
184,492	42–1716	81	Less stringent	3,770,311	7–29	0.61%
184,492	42–1716	81	More stringent	78,524	15–97	0.02%

The number of input mammalian CTCF ChIP-Seq sequences and their range of lengths are shown. Also presented is the number of CTCF binding motif clusters identified from MEME-ChIP. Last presented are FIMO results that are categorised into two sets by filtering stringencies. 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, motif score no smaller than 80, and non-overlapping. For each set the number of CTCF binding motifs discovered in the bovine genome, their range of lengths, and the proportion of these motifs making up the bovine genome are shown

ISSN: 1471-2164