In Vitro Effects of Lead on Gene Expression in Neural Stem Cells and Associations between Up-regulated Genes and Cognitive Scores in Children

http://dx.doi.org/10.1289/EHP265



Table 2. Summary of SPP1 SNP association effect sizes and p-values in determining CDI, LDI and PDI.
rs id chr4 bp Alleles MAF Cognitive development index (CDI) Language development index (LDI) Psychomotor development index (PDI)
Main effect Interaction Main effect Interaction Main effect Interaction
β p-Val SNP SNP*logPb β p-Val SNP SNP*logPb β p-Val SNP SNP*logPb
β p-Val β p-Val β p-Val β p-Val β p-Val β p-Val
Note: Models were adjusted for sex, gestational age, maternal age, marital status, presence of siblings, maternal education, genome-wide principal components 1 and 2, and natural log of second trimester maternal blood Pb level. Alleles are written in the format minor allele/major allele. According to the method proposed by Li and Ji (2005), the p-value cut off for this analysis of SNPs in LD to maintain a 5% Type 1 error rate is 0.00568; a single significant result is marked with bold text. Main effects from interaction analysis are provided in Table S2.
rs4693923 88888113 A/G 0.11 –0.18 0.8338 –0.65 0.6881 0.12 0.7425 0.44 0.6344 –1.16 0.5047 0.45 0.2516 –0.77 0.4461 –3.96 0.03735 0.91 0.03547
rs12641001 88888940 T/C 0.10 2.56 0.00508 3.97 0.01465 –0.37 0.2723 1.72 0.078 2.44 0.1589 –0.22 0.5449 0.88 0.4089 3.82 0.04506 –0.65 0.1012
rs6833161 88889605 T/C 0.32 0.26 0.6557 0.57 0.6011 –0.09 0.7115 0.58 0.3557 0.30 0.7952 0.07 0.7677 0.54 0.4271 0.28 0.8252 0.12 0.6611
rs6813526 88894235 C/T 0.13 1.67 0.04771 2.67 0.06719 –0.24 0.3895 1.91 0.0324 1.89 0.2224 –0.01 0.9617 0.70 0.4694 3.20 0.06073 –0.54 0.1052
rs2728127 88895115 G/A 0.14 1.69 0.03471 2.99 0.03169 –0.29 0.2822 1.93 0.02355 1.93 0.1899 –0.01 0.983 1.28 0.1667 3.68 0.02321 –0.49 0.1255
rs2853744 88896248 T/G 0.07 1.64 0.1167 2.26 0.2209 –0.20 0.5934 3.01 0.00671 4.19 0.03141 –0.35 0.3725 1.34 0.2693 4.95 0.02173 –0.76 0.07875
rs11730582 88896421 T/C 0.46 0.53 0.3454 0.64 0.5377 –0.06 0.8091 0.97 0.1054 0.74 0.5008 0.04 0.8628 0.11 0.8629 –0.66 0.5887 0.24 0.3948
rs11728697 88898941 C/T 0.44 0.24 0.667 0.84 0.4201 –0.18 0.4622 0.92 0.1239 0.94 0.3916 0.00 0.996 0.09 0.8852 –0.14 0.9079 0.12 0.6655
rs6811536 88902405 T/C 0.18 –0.49 0.4734 –1.26 0.303 0.18 0.4957 –1.22 0.09704 –1.38 0.2897 0.08 0.7932 –0.80 0.3165 0.31 0.8282 –0.33 0.2974
rs4754 88902692 C/T 0.43 0.70 0.1951 0.23 0.8117 0.15 0.4827 0.92 0.1085 0.83 0.415 0.01 0.9576 0.84 0.1788 1.12 0.3191 –0.05 0.8477
rs1126616 88903853 T/C 0.43 0.71 0.1878 0.28 0.7698 0.14 0.5191 0.87 0.1253 0.86 0.3963 –0.01 0.9741 0.81 0.1902 1.16 0.2997 –0.07 0.7927
rs1126772 88904186 G/A 0.17 0.69 0.3339 2.29 0.1085 –0.41 0.229 0.90 0.237 0.85 0.5708 0.03 0.9273 0.53 0.5197 0.26 0.8748 0.12 0.7667
rs9138 88904342 C/A 0.43 0.82 0.132 0.26 0.7909 0.18 0.4079 1.00 0.0842 0.84 0.4128 0.03 0.8925 0.85 0.1777 1.08 0.3378 –0.04 0.8841
rs10012150 88905795 C/T 0.17 0.63 0.37 2.16 0.1273 –0.39 0.245 0.88 0.234 0.71 0.6338 0.06 0.8647 0.74 0.3566 0.43 0.7946 0.13 0.7494
rs7685225 88906458 C/T 0.11 0.83 0.3564 3.40 0.03468 –0.66 0.04885 0.12 0.8967 –0.05 0.9769 0.01 0.9745 0.09 0.9341 1.02 0.5889 –0.30 0.4512
rs7675246 88908998 A/G 0.18 –0.72 0.2987 –1.60 0.1913 0.22 0.4219 –1.53 0.03807 –1.97 0.1274 0.15 0.6057 –0.62 0.4351 0.67 0.6378 –0.38 0.2261