Table 1.

Significant haplotypes on ULK4 gene by LBL

SNP# in haplotype block	Location	Hap name	Hap freq	LBL (OR)	LBL (BF)	Haplo GLM (p value)	Haplo score (p value)	Haplo score overall test (p value)
3–7	41291081–41497081	10101	0.0014	3.823	3.232*	0.023*	0.004*	0.204
4–8	41439551–41497115	01010	0.0012	6.064	5.627*	0.000*	0.001*	0.016*
5–9	41439790–41504594	10101	0.0012	5.920	6.796*	0.000*	0.001*	0.012*
6–10	41439797–41504679	01010	0.0014	3.477	2.909*	0.000*	0.004*	0.008*
7–11	41497081–41607541	10100	0.0013	3.490	2.511*	0.000*	0.004*	0.009*
8–12	41497115–41657184	01000	0.0014	3.511	3.061*	0.000*	0.004*	0.005*
9–13	41504594–41722969	10000	0.0014	3.314	2.511*	0.024*	0.004*	0.005*
11–15	41607541–41723054	00010	0.0019	0.218	2.020*	0.000*	0.130	0.085
15–19	41723054–41756933	00010	0.0125	0.384	4.736*	0.032*	0.019*	0.129
16–20	41723090–41756965	00101	0.0122	0.382	4.599*	0.029*	0.022*	0.125
17–21	41723151–41756986	01011	0.0121	0.385	4.254*	0.032*	0.022*	0.191
18–22	41723280–41759191	10111	0.0118	0.358	7.985*	0.019*	0.015*	0.128
39–43	41925423–41939990	00001	0.0055	2.512	3.396*	0.012*	0.004*	0.219
40–44	41937000–41939992	10000	0.0935	2.101	3.930*	0.282	0.132	0.180
		00010	0.0050	6.598	>100*	0.048*	0.002*
		00100	0.0466	4.586	>100*	0.234	0.121
		00101	0.0769	0.546	2.456*	0.668	0.314
41–45	41938500–41942199	00011	0.0458	2.623	6.006*	0.185	0.895	0.357
42–46	41938522–41942348	01000	0.0062	2.166	2.031*	0.235	0.024*	0.157
		00110	0.0443	3.462	>100*	0.325	0.743
43–47	41939990–41949301	01101	0.0413	2.285	4.025*	NA	0.887	0.428
44–48	41939992–41949348	11010	0.0418	2.201	3.677*	0.525	0.807	1.000

Major allele is coded as zero. SNP# corresponds to the order of SNP in the gene among SNPs with MAF ≥0.001 and no more than 25 % missing genotypes

Hap haplotype, Hap freq haplotype frequency (obtained from hapassoc); NA, haplo.glm did not run for this region and gave an error

*Significant BF or p value