Table 1. Top associated loci with P-value < 1×10-4.
All loci with p-value < 1×10-4 from logistical regression analysis. Some loci have more than one SNP associated; only the top marker is reported. A brief search of the literature was performed to report putative gene function. Genes are reported when the marker resides within the gene, as annotated in dbSNP. Otherwise it is reported as intergenic. Alleles, odds ratios and P-values are all from our current study. Allele frequency is from CEU HapMap, referring to the allele tested. Position refers to genome build 36.
| Chr | SNP | Position | Gene | Gene function or previous gene association from literature | Allele* | CEU freq | OR† | 95% CI‡ | P-value |
|---|---|---|---|---|---|---|---|---|---|
| 1 | rs10875290 | 100626343 | CDC14A | Cell cycle control | T | 0.35 | 1.53 | 1.30-1.80 | 3.55E-07 |
| 1 | rs1571346 | 110478611 | Intergenic | G | 0.48 | 1.38 | 1.18-1.62 | 7.94E-05 | |
| 1 | rs6667692 | 182820193 | C1orf21 | No putative function | C | 0.39 | 0.71 | 0.61-0.84 | 4.01E-05 |
| 3 | rs3860579 | 21539353 | ZNF385D | Among top hits in partial epilepsy GWAS (Kasperaviciute et al) and GWAS on negative symptoms in schizophrenia (Xu et al) | A | 0.36 | 0.7 | 0.59-0.83 | 5.36E-05 |
| 3 | rs10936719 | 173485820 | FNDC3B | Various non-psychiatric traits like height. | G | 0.52 | 0.7 | 0.59-0.83 | 2.09E-05 |
| 4 | rs4832800 | 36033902 | Intergenic | A | 0.21 | 0.65 | 0.52-0.81 | 8.90E-05 | |
| 5 | rs350033 | 40240372 | Intergenic | T | 0.11 | 1.9 | 1.45-2.50 | 3.91E-06 | |
| 5 | rs17167531 | 99329060 | Intergenic | C | 0.33 | 0.69 | 0.58-0.82 | 3.17E-05 | |
| 6 | rs1474618 | 18763549 | Intergenic | C | 0.32 | 0.69 | 0.57-0.83 | 5.52E-05 | |
| 6 | rs4644033 | 67614614 | Intergenic | T | 0.37 | 1.42 | 1.20-1.68 | 3.73E-05 | |
| 7 | rs2854843 | 45897660 | IGFBP1 | Binds Insuline-like growth factor (IGF) | C | 0.17 | 1.58 | 1.27-1.96 | 3.81E-05 |
| 7 | rs6949094 | 136934899 | DGKI | Diacyl glycerol kinase, iota type. Associated with dyslexia (Matsson et al), and schizophrenia (Moskvina et al) | C | 0.05 | 2.05 | 1.44-2.92 | 7.19E-05 |
| 7 | rs2058448 | 150077753 | Intergenic | T | 0.27 | 0.67 | 0.56-0.81 | 4.47E-05 | |
| 9 | rs1529191 | 101885729 | ERP44 | Regulation of serotonin transporter (Freyaldenhoven et al) | A | 0.45 | 0.72 | 0.61-0.85 | 9.41E-05 |
| 10 | rs10904109 | 3886686 | Intergenic | G | 0.00 | 2.51 | 1.62-3.86 | 2.99E-05 | |
| 10 | rs11016132 | 129908545 | Intergenic | G | 0.05 | 0.38 | 0.24-0.61 | 4.68E-05 | |
| 11 | rs2344350 | 6281254 | Intergenic | T | 0.16 | 0.59 | 0.46-0.77 | 5.64E-05 | |
| 11 | rs2682095 | 6393280 | APBB1 | APP binding protein, possibly regulating cell cycle and transcription. | G | 0.24 | 1.4 | 1.18-1.66 | 8.37E-05 |
| 12 | rs11106592 | 91417726 | Intergenic | A | 0.05 | 0.55 | 0.40-0.74 | 8.62E-05 | |
| 12 | rs6490045 | 114872013 | Intergenic | A | 0.10 | 1.73 | 1.32-2.27 | 8.09E-05 | |
| 13 | rs1887894 | 20505600 | LATS2 | Mitosis regulating protein. | A | 0.26 | 1.43 | 1.19-1.70 | 6.98E-05 |
| 13 | rs1160720 | 34784675 | NBEA | Involved in neuronal post-Golgi trafficking, including neurotransmitter receptors. | G | 0.16 | 1.82 | 1.47-2.25 | 2.97E-08 |
| 14 | rs2282031 | 89800696 | PSMC1 | Proteasome subunit, with chaperone-like activity. Associated with formation of Lewy bodies (Bedford et al). | C | 0.32 | 0.69 | 0.59-0.83 | 3.77E-05 |
| 15 | rs8026848 | 27361149 | FAM189A1 | No putative function | G | 0.24 | 1.45 | 1.20-1.75 | 9.04E-05 |
| 15 | rs7168815 | 85238303 | AGBL1 | Variants associated with Fuchs cornea dystrophy. | A | 0.09 | 0.41 | 0.27-0.61 | 8.05E-05 |
| 20 | rs41392045 | 13022330 | SPTLC3 | Subunit of SPT, catalyzing sphingolipid synthesis. Trend in bipolar disorder with agressiveness/hostility (Alliey-Rodriguez et al). | C | 0.04 | 2.07 | 1.46-2.91 | 3.38E-05 |
| 20 | rs4635580 | 40383245 | PTPRT | Possible role in signal transduction and cell adhesion in CNS. | T | 0.06 | 0.34 | 0.21-0.57 | 4.50E-05 |
| 22 | rs6004447 | 23869631 | KIAA1671 | Decreased expression in thyroid cancer | G | 0.32 | 1.47 | 1.23-1.75 | 2.20E-05 |
| 23 | rs5972211 | 30609088 | GK | Phosphorylates glycerol, initiating its metabolism. | A | 0.30 | 0.67 | 0.55-0.81 | 4.79E-05 |
*
:Tested allele in this study.
†
: OR = Odds ratio.
‡
:95% CI = 95% Confidence Interval
References for Table 1: (Alliey-Rodriguez et al., 2011; Bedford et al., 2008; Kasperaviciute et al., 2010; Moskvina et al., 2008; Xu et al., 2013)