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Table 1 Results of the 27 SNPs with P values < 5 × 10–6 in the discovery phase

From: Genetics of early-life head circumference and genetic correlations with neurological, psychiatric and cognitive outcomes

SNP CHR Position Nearest gene EA/non_EA P value discovery P value replication EAFa Beta (SE) combined P value combined Heterogeneity I2 combined analysis
rs8756b, c, d 12 66,359,752 HMGA2 C/A 5.18 × 10–12 4.62 × 10–3 0.50 0.065 (0.009) 1.84 × 10–13 0
rs9795522b 12 123,730,935 C12orf65 C/A 3.20 × 10–9 3.86 × 10–5 0.23 0.072 (0.010) 7.37 × 10–12 0
rs10883848d 10 104,973,061 NT5C2 A/G 3.06 × 10–6 0.03 0.35 0.058 (0.010) 9.99 × 10–10 54.8
rs6095360 20 47,532,536 ARFGEF2 G/A 3.53 × 10–8 6.19 × 10–4 0.32 0.055 (0.009) 4.39 × 10–9 36.6
rs3134614 1 40,363,054 MYCL1 C/G 4.31 × 10–6 7.75 × 10–4 0.88 0.075 (0.013) 1.43 × 10–8 0
rs6016511 20 39,709,255 TOP1 T/C 4.55 × 10–7 0.02 0.68 0.052 (0.010) 4.02 × 10–8 0
rs7792211d 7 50,707,141 GRB10 G/A 7.62 × 10–7 0.01 0.42 0.051 (0.009) 4.43 × 10–8 11.3
rs1490384c, d 6 126,851,160 CENPW T/C 5.46 × 10–8 0.14 0.51 0.049 (0.009) 5.70 × 10–8* 43.9
rs116536930 17 43,855,156 CRHR1 G/T 4.19 × 10–8 0.53 0.51 0.055 (0.011) 2.27 × 10–7* 40.1
rs72952297 2 180,379,814 ZNF385B T/G 2.07 × 10–6 0.11 0.93 0.087 (0.018) 9.19 × 10–7* 0
rs12350281 9 20,637,773 MLLT3 G/A 4.22 × 10–6 0.03 0.05 0.152 (0.031) 9.98 × 10–7* 43.1
rs7658192 4 140,023,559 ELF2 T/G 2.29 × 10–7 0.46 0.33 0.046 (0.010) 1.70 × 10–6* 62.9
rs143094271e 17 7,463,102 TNFSF12-TNFSF13 A/G 5.96 × 10–7 0.44 0.02 0.133 (0.028) 2.02 × 10–6* 33.7
rs1014098 1 119,458,215 TBX15 C/T 2.67 × 10–6 0.17 0.79 0.051 (0.011) 2.05 × 10–6* 30.3
rs77690628 8 26,189,223 PPP2R2A A/T 1.02 × 10–6 0.31 0.07 0.080 (0.017) 3.26 × 10–6* 24.6
rs9853018 3 141,101,961 ZBTB38 T/C 5.41 × 10–7 0.62 0.45 0.040 (0.009) 5.30 × 10–6 38.4
rs4674101 2 217,487,622 RPL37A A/G 8.66 × 10–7 0.57 0.31 0.043 (0.010) 6.56 × 10–6 65.3
rs150266910 1 23,442,265 LUZP1 C/T 1.42 × 10–6 0.65 0.83 0.052 (0.012) 1.04 × 10–5 58.2
rs13067734 3 141,963,015 GK5 A/C 2.83 × 10–6 0.55 0.52 0.037 (0.009) 1.22 × 10–5 26.5
rs17223831 14 90,601,920 KCNK13 A/G 1.24 × 10–6 0.18 0.14 0.067 (0.015) 1.30 × 10–5 67.6
rs62580922 9 125,631,594 RC3H2 C/T 1.13 × 10–8 0.35 0.07 0.072 (0.017) 1.52 × 10–5 77.8
rs2448415 1 93,469,310 FAM69A A/G 1.97 × 10–6 0.81 0.47 0.037 (0.009) 2.56 × 10–5 60.7
rs261752 5 39,328,506 C9 A/G 1.39 × 10–6 0.70 0.55 0.035 (0.009) 7.63 × 10–5 63.7
rs72979897 6 140,881,181 MIR3668 T/A 4.13 × 10–6 0.88 0.04 0.100 (0.025) 8.26 × 10–5 50.6
rs503783 6 161,959,649 PARK2 T/C 2.98 × 10–6 0.66 0.27 0.037 (0.010) 1.59 × 10–4 74.3
rs113397574 5 31,968,320 PDZD2 T/C 4.56 × 10–6 0.61 0.02 0.118 (0.032) 2.40 × 10–4 58.5
rs77535478 9 77,533,287 TRPM6 A/G 1.28 × 10–6 0.39 0.04 0.081 (0.026) 2.05 × 10–3 75.4
  1. Bolded P values indicate genome-wide significance in the combined analysis
  2. CHR chromosome, EA effect allele, EAF effect allele frequency, SE standard error
  3. *Genome-wide suggestive loci
  4. aFrom combined analysis
  5. bLocus previously reported for infant head circumference [11]
  6. cLocus previously reported for adult intracranial volume [7, 9]
  7. dLocus previously reported for adult head brain volume [8]
  8. eLocus previously reported for childhood and adult head circumference and intracranial volume [10]