Analysis of copy loss and gain variations in Holstein cattle autosomes using BeadChip SNPs

BMC Genomics

Table 1 Gene ontology (GO) categories significantly overrepresented in Holstein CNV.

	Human ref. gene #	CNV gene #	Expected	P value
*Pathways*
Wnt signalling pathway¹	348	26	10.80	0.00878
Alzheimer disease-presenilin pathway¹	143	12	4.44	0.344
Cadherin signalling pathway¹	168	13	5.21	0.459
*Biological Process*
Chemosensory perception²	207	37	6.42	8.75E-15
Olfaction²	198	36	6.14	1.88E-14
Sensory perception²	506	48	15.70	7.16E-10
G-protein-mediated signalling²	834	66	25.87	2.10E-09
Cell surface receptor-mediated signal transduction²	1638	92	50.82	6.01E-06
Signal transduction²	3406	156	105.67	1.26E-05
Transport³	1306	63	40.52	0.014
*Molecular Function*
G-protein-coupled receptor²	571	50	17.72	2.18E-08
Receptor²	1512	82	46.91	2.77E-05
Cell-adhesion molecule¹	395	24	12.25	0.0511
Cadherin¹	111	11	3.44	0.14
Transporter³	648	32	20.10	0.229

NCBI list of 25,431 Homo sapiens genes were compared to the list of 789 genes orthologous to the CNV gene content (Additional file 3) using PANTHER. ^1,2,3 denote categories that are associated with overrepresentation of gene families for cadherins, olfactory receptors and transporters, respectively. The full version of this table is provided in Additional file 4.

ISSN: 1471-2164