Table 3 SNPs significantly associated with variation in principal components of nutritional indices at P < 10−6
PCDietSNPPEffectMAFGeneFBgnTypeFunctionReference
PC1HGD2L.159903829.79E-07−0.9880.465CR43412FBgn0263331Down (435)Nonprotein codingTweedie et al. 2009
X.169189019.24E-071.0460.300CG43997FBgn0264739Down (923)UnknownNA
PC2HGD3L.12352707.76E-08−1.0150.309CG33966FBgn00539663′ UTRVitamin E bindingTweedie et al. 2009
3L.12352738.26E-07−0.9270.324CG33966FBgn00539663′ UTRVitamin E bindingTweedie et al. 2009
3L.26441689.74E-070.9740.264CG14949FBgn0035358Up (744)UnknownNA
3L.174985849.88E-070.9700.270Oatp74DFBgn0036732IntronOrganic anion transportTweedie et al. 2009
PC3HGDX.204111245.38E-07−0.9770.222RunxBFBgn0259162IntronDNA bindingBoutros et al. 2004
PC4HGD3R.142058782.25E-07−0.9760.178CG7675FBgn0038610IntronGlucose/ribitol reductaseTweedie et al. 2009
3R.142061662.70E-08−1.0160.200CG7675FBgn0038610IntronGlucose/ribitol reductaseTweedie et al. 2009
3R.142061702.34E-07−0.9240.211CG7675FBgn0038610IntronGlucose/ribitol reductaseTweedie et al. 2009
X.83162425.06E-07−1.6300.080NANANANANA
PC5HGD2L.185374208.35E-07−0.8170.181Pde11FBgn0085370Syn.PhosphodiesteraseDay et al. 2005
2L.190680869.35E-07−1.6930.036CG10702FBgn0032752IntronProtein phosphorylationTweedie et al. 2009
CG17343FBgn0032751IntronRegulation of mitotic anaphaseTweedie et al. 2009
3L.127614011.40E-07−1.8000.035CG32113FBgn0052113Syn.Vesicle-mediated transportTweedie et al. 2009
3R.222496074.98E-07−1.1440.085CG6503FBgn0040606Down (813)UnknownNA
PC1LGDNANANANANANANANANA
PC2LGD2L.141097743.30E-071.1220.225CG31769FBgn0051769Syn.UnknownNA
2R.68938626.94E-071.1260.196lunaFBgn0040765IntronDNA bindingBoutros et al. 2004
X.126035669.74E-070.8890.373SmrFBgn0263865IntronRegulation of mitotic cell cyclePile et al. 2002
PC3LGD3R.255034637.36E-070.8840.302CAP-D2FBgn0039680IntronMitotic sister chromatin segregationBoutros et al. 2004
3R.255041189.66E-071.0090.269CAP-D2FBgn0039680Syn.Mitotic sister chromatin segregationBoutros et al. 2004
PC4LGD2R.41762796.74E-071.6400.042NANANANANA
3L.122629316.95E-070.6660.442PbgsFBgn00362713′ UTRPorphobolinogin synthaseGolombieski et al. 2008
3L.124120474.3E-072.330.021NANANANANA
3L.133484311.72E-071.6820.042CG17687FBgn0036348Down (391)UnknownNA
PC5LGDNANANANANANANANANA
  • Effect, effect size of minor allele; MAF, minor allele frequency. SNPs labeled NA are not within 1000 bp of an annotated gene. Lines with all NAs indicate no SNPs met significance threshold.