Obesity polymorphisms identified in genome-wide association studies interact with n-3 polyunsaturated fatty acid intake and modify the genetic association with adiposity phenotypes in Yup’ik people

Table 3 Obesity GWAS SNP polymorphisms

Gene	SNP^a	Chr	Risk allele	Frequency of risk allele	Frequency of risk allele in HAPMAP populations					HWE (p value)	References
Gene	SNP^a	Chr	Risk allele	Frequency of risk allele	YRI	CEU	HCB	JPT	MEX	HWE (p value)	References
NEGR1	rs2815752	1	A	0.81	0.53	0.64	0.88	0.92	0.73	0.2007	Willer et al. (2009)
TMEM18	rs7561317	2	G	0.85	0.79	0.85	0.91	0.88	0.88	0.1768	Thorleifsson et al. (2009)
ETV5	rs7647305	3	C	0.94	0.61	0.79	0.94	0.94	0.81	0.478	Thorleifsson et al. (2009)
GNPDA2	rs10938397	4	G	0.15	0.21	0.45	0.25	0.37	NA	0.2097	Willer et al. (2009)
BDNF	rs6265	11	G	0.96	0.99	0.81	0.38	0.63	0.79	1	Willer et al. (2009)
MTCH2	rs10838738	11	G	0.66	0.04	0.36	0.35	0.35	0.4	0.0037	Willer et al. (2009)
SH2B1	rs7498665	16	G	0.66	0.21	0.38	0.15	0.13	0.38	0.462	Thorleifsson et al. (2009), Willer et al. (2009)
FTO	rs9939609	16	A	0.19	0.51	0.46	0.12	0.19	NA	0.3223	Frayling et al. (2007), Scuteri et al. (2007), Willer et al. (2009)
MC4R	rs17782313	18	C	0.08	0.31	0.27	0.14	0.24	0.14	1	Loos et al. (2008), Willer et al. (2009)
KCTD15	rs29941	19	C	0.31	0.86	0.68	0.22	0.26	0.65	0.4179	Thorleifsson et al. (2009)

Frequency of BMI-increasing allele computed using FREQ module in S.A.G.E. Frequency of BMI-increasing allele among five HapMap populations: Yoruba in Ibadan, Nigeria (YRI), Utah residents with ancestry from northern and western Europe (CEU), Han Chinese in Beijing, China (CHB), Japanese in Tokyo, Japan (JPT), Mexican ancestry in Los Angeles, California. HWE p value computed using founders in PLINK (Purcell et al. 2007)
^aSeattle SNPs Genome Variation Server on March 2008 (dbSNP build 126) Version 5.01

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