Genome-wide association analysis of heifer livability and early first calving in Holstein cattle

BMC Genomics

Table 3 Gene-trait association pairs detected by TWAS based on CattleGTEx database

Trait	Gene	Chr	Start	End	P value	#SNP	Tissue
Heifer Livability	TP53BP2	16	27,139,848	27,207,478	0.000527	18	Intramuscular fat
	C1QTNF9	12	34,293,438	34,304,505	0.003071	52	Liver
	MIC1	23	27,841,095	27,913,198	0.003337	4	Uterus
	PDCD10	1	99,744,376	99,804,996	0.004992	1	Uterus
Early Calving		23	28,925,617	28,926,246	4.00E-05	2	Lymph node
		23	27,796,195	27,797,556	4.09E-05	1	Lymph node
		23	29,612,534	29,613,169	0.000185	1	Adipose
	ZSCAN26	23	30,416,140	30,427,406	0.000185	1	Lymph node
	PGBD1	23	30,390,348	30,412,787	0.000185	1	Hypothalamus
	TRIM26	23	28,777,770	28,787,696	0.000185	1	Lymph node
		23	29,930,410	29,931,333	0.000187	1	Oviduct
	BOLA	23	28,720,501	28,724,399	0.000413	5	Blood
	ZSCAN16	23	30,561,557	30,568,915	0.000448	1	Liver
	ZSCAN31	23	30,377,190	30,379,817	0.000526	2	Hypothalamus
	H4C3	23	31,847,243	31,847,554	0.000836	2	Blood
		23	28,677,524	28,686,666	0.000877	1	Uterus
	OR12D2	23	29,305,933	29,309,785	0.000878	2	Adipose
	MIC1	23	27,841,095	27,913,198	0.001024	4	Uterus
	ELAC2	19	31,362,746	31,378,583	0.001419	19	Intramuscular fat
		23	27,871,206	27,875,056	0.001801	1	Leukocyte
		23	30,510,284	30,513,892	0.002936	1	Hypothalamus
	MDC1	23	28,304,399	28,316,822	0.003641	3	Blood
		23	25,691,259	25,695,296	0.003865	1	Lymph node
		23	25,583,083	25,589,209	0.003865	1	Uterus
	HFE	23	31,855,234	31,864,562	0.004076	1	Hypothalamus
	RNF39	23	28,904,289	28,908,861	0.00474	1	Leukocyte
		23	28,741,064	28,750,116	0.00474	1	Oviduct

ISSN: 1471-2164