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Table 3 The top ten genes identified in the SMR analysis of CCT in participants of East Asian ancestry

From: Mendelian randomization analysis identified genes pleiotropically associated with central corneal thickness

eQTL data Gene ID Gene CHR Top SNP PeQTL PGWAS Beta SE PSMR PHEIDI Q value
CAGE ILMN_1754858 PASK 2 rs16843242 7.23 × 10− 116 6.20 × 10− 5 2.865 0.726 7.98 × 10− 5 3.73 × 10− 1 0.400
ILMN_1667022 PASK 2 rs16843242 1.61 × 10− 102 6.20 × 10−5 3.056 0.776 8.24 × 10− 5 3.90 × 10−1 0.400
ILMN_1670870 ALCAM 3 rs9810954 2.67 × 10−54 6.92 × 10− 5 −5.006 1.299 1.16 × 10−4 4.93 × 10−1 0.400
ILMN_1777906 MAP 7D1 1 rs11263861 3.51 × 10−109 1.05 × 10− 4 −3.348 0.876 1.33 × 10−4 2.01 × 10−5 0.400
ILMN_1778104 ACADM 1 rs2133134 7.36 × 10−72 1.85 × 10−4 6.341 1.733 2.52 × 10−4 1.15 × 10−3 0.575
ILMN_1765578 TIPARP 3 rs344050 1.98 × 10−9 6.46 × 10−6 10.924 3.030 3.12 × 10− 4 3.42 × 10−2 0.575
ILMN_1654065 ATOH8 2 rs10187314 6.31 × 10−93 3.22 × 10−4 3.393 0.958 3.97 × 10−4 1.95 × 10− 1 0.575
ILMN_1696713 POLA2 11 rs487989 1.06 × 10−30 2.03 × 10−4 6.068 1.716 4.07 × 10− 4 1.68 × 10− 3 0.575
ILMN_1703229 HIATL1 9 rs56987829 8.47 × 10−26 1.86 × 10−4 4.510 1.281 4.30 × 10−4 4.26 × 10−2 0.575
ILMN_1737964 HIATL1 9 rs117447155 2.16 × 10−128 5.12 × 10−4 1.601 0.465 5.84 × 10−4 7.80 × 10−3 0.634
GTEx ENSG00000273142.1 RP11-458F8.4 7 rs4718424 3.54 × 10−25 1.89 × 10−6 5.550 1.282 1.50 × 10−4 2.50 × 10−2 0.103
ENSG00000226824.2 RP4-756H11.3 7 rs6979488 3.99 × 10−30 2.67 × 10−5 3.156 0.801 8.11 × 10−4 3.92 × 10− 4 0.280
ENSG00000116871.11 MAP 7D1 1 rs11263861 3.60 × 10−36 1.05 × 10−4 −7.011 1.892 2.11 × 10−4 4.71 × 10−3 0.484
ENSG00000148110.11 HIATL1 9 rs56074891 3.46 × 10−33 1.95 × 10−4 4.615 1.297 3.73 × 10−4 3.17 × 10−2 0.644
ENSG00000241258.2 CRCP 7 rs1643388 1.34 × 10−34 2.99 × 10−4 −4.654 1.342 5.24 × 10−4 1.81 × 10−10 0.723
ENSG00000238268.2 RP11-229P13.19 9 rs3814499 4.82 × 10−36 4.58 × 10−4 4.691 1.390 7.38 × 10−4 1.65 × 10−1 0.849
ENSG00000014138.4 POLA2 11 rs1858783 3.68 × 10−14 2.52 × 10−4 7.358 2.233 9.82 × 10−4 6.70 × 10−4 0.941
ENSG00000203363.2 AC012454.4 2 rs1561285 1.15 × 10−19 5.29 × 10−4 3.674 1.135 1.21 × 10−3 8.10 × 10−1 0.941
ENSG00000117054.9 ACADM 1 rs61799967 1.32 × 10−12 3.69 × 10−4 14.740 4.631 1.46 × 10−3 4.90 × 10− 3 0.941
ENSG00000168528.7 SERINC2 1 rs7541464 4.49 × 10−25 8.34 × 10−4 3.282 1.032 1.48 × 10−3 7.00 × 10− 2 0.941
  1. *The GWAS summarized data were provided by the study of Iglesias et al. and can be downloaded at https://datashare.is.ed.ac.uk/handle/10283/2976. The CAGE and GTEx eQTL data can be downloaded at https://cnsgenomics.com/data/SMR/#eQTLsummarydata
  2. PeQTL is the P-value of the top associated cis-eQTL in the eQTL analysis, and PGWAS is the P-value for the top associated cis-eQTL in the GWAS analysis. Beta is the estimated effect size in SMR analysis, SE is the corresponding standard error, PSMR is the P-value for SMR analysis and PHEIDI is the P-value for the HEIDI test
  3. FDR was calculated at P = 10− 3 threshold
  4. CAGE Consortium for the Architecture of Gene Expression, CCT central corneal thickness, CHR chromosome, eQTL expression quantitative trait loci, GTEx Genotype-Tissue Expression, HEIDI heterogeneity in dependent instruments, SNP single-nucleotide polymorphism, SMR summary data-based Mendelian randomization, FDR false discovery rate, GWAS genome-wide association studies