Table 4.

Significant haplotypes on MAP4 gene by haplo.glm or haplo.score (in addition to those indicated in Table 2)

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)
2–6	47910743–47917263	00001	0.0011	0.358	1.095	0.000*	0.252	0.643
3–7	47912703–47950634	00010	0.0011	0.369	1.090	0.000*	0.252	0.412
4–8	47913380 –47951234	00100	0.0011	0.358	1.102	0.000*	0.252	0.457
5–9	47913498–47951238	01000	0.0011	0.345	1.211	0.000*	0.252	0.411
6–10	47917263–47951299	10000	0.0011	0.345	1.113	0.000*	0.252	0.257
7–11	47950634–47956424	00001	0.3347	1.155	0.272	0.044*	0.065	0.097
8–12	47951234–47957996	00010	0.3131	1.175	0.368	0.029*	0.034*	0.203
10–14	47951299–47963395	01010	0.2828	1.156	0.250	0.048*	0.086	0.177
11–15	47956424–47969734	10100	0.2860	1.172	0.324	0.040*	0.058	0.089
13–17	47958037–48040283	10000	0.2782	1.169	0.312	0.047*	0.051	0.614

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. The block shown in bold in the first column is reported in Table 3 also but for a different haplotype

Hap haplotype, Hap freq haplotype frequency (obtained from hapassoc)

*Significant p value