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

Table 1 Summary statistics of TAD mapping

Input TADs		Reference assembly	Number of TADs	Mean TAD width (kb)	Number of input TADs mapped (ratio)
Study	Cell or tissue	Reference assembly	Number of TADs	Mean TAD width (kb)	1 location in bovine genome	Same bovine chromosome	Bovine genome
Dixon 2012	hESC	hg18	3127	852.2	–	–	–
	hESC	bostau6	2885	830.5	2784(89.03%)	2930(93.70%)	2956(94.53%)
	IMR90	hg18	2349	1122	–	–	–
	IMR90	bostau6	2236	1071	2050(87.27%)	2198(93.57%)	2261(96.25%)
	mESC	mm9	2200	1093	–	–	–
	mESC	bostau6	2173	1104	1912(86.91%)	2041(92.77%)	2127(96.68%)
	cortex	mm9	1519	1542	–	–	–
	cortex	bostau6	1597	1489	1283(84.46%)	1401(92.23%)	1502(98.88%)
Rudan 2015	liver	mm10	3643	695	–	–	–
		bostau6	3507	602.5	2388(65.55%)	2873(78.86%)	2901(79.63%)
		canfam3	3315	686.5	–	–	–
		bostau6	2979	810	2731(82.38%)	2887(87.09%)	2916(87.96%)

The source study and cell/tissue from input TAD dataset, and also the input and output reference assemblies with the number of TADs and their mean width (in kilobases) are shown. Also presented are the number of input TADs that did not split during mapping (1 location in the bovine genome), the number of input TADs that did not split or split intra-chromosomally during mapping (same bovine chromosome), and the number of input TADs that did not split, split intra-chromosomally or inter-chromosomally during mapping (bovine genome)

ISSN: 1471-2164