| Literature DB >> 20360993 |
David P Dimasi1, Kathryn P Burdon, Alex W Hewitt, Ravi Savarirayan, Paul R Healey, Paul Mitchell, David A Mackey, Jamie E Craig.
Abstract
PURPOSE: The genetic component underlying variation in central corneal thickness (CCT) in the normal population remains largely unknown. As CCT is an identified risk factor for open-angle glaucoma, understanding the genes involved in CCT determination could improve our understanding of the mechanisms involved in this association.Entities:
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Year: 2010 PMID: 20360993 PMCID: PMC2847681
Source DB: PubMed Journal: Mol Vis ISSN: 1090-0535 Impact factor: 2.367
Results of association tests for SNPs from all the candidate genes in the case-control analysis.
| 0.16 | 0.49 | 0.42 | 0.1 | 0.23 | 0.1 | ||||
| 0.44 | 0.82 | 0.6 | 0.26 | 0.7 | 0.08 | ||||
| 0.36 | 1 | 0.5 | 0.08 | 0.87 | 0.24 | ||||
| 0.24 | 0.059 | 0.085 | 0.06 | 0.41 | |||||
| 0.39 | 0.85 | 0.62 | 0.18 | 0.23 | 0.37 | ||||
| 0.24 | 0.18 | 0.57 | 0.06 | 0.98 | 0.24 | ||||
| 0.48 | 0.16 | 0.89 | 0.2 | 0.67 | 0.67 | ||||
| 0.2 | 0.59 | 0.93 | 0.09 | 0.67 | 0.092 | ||||
| 0.47 | 0.98 | 0.35 | 0.17 | 0.48 | 0.53 | ||||
| 0.3 | 0.88 | 0.42 | 0.09 | 0.51 | |||||
| 0.2 | 0.43 | 0.8 | 0.31 | 0.55 | 0.93 | ||||
| 0.22 | 0.77 | 0.8 | 0.43 | 0.2 | 0.42 | ||||
| 0.36 | 0.88 | 0.52 | 0.11 | 0.19 | 0.24 | ||||
| 0.23 | 0.15 | 0.16 | 0.25 | 0.95 | 0.56 | ||||
| 0.43 | 0.35 | 0.8 | 0.12 | 0.7 | 0.1 | ||||
| 0.08 | 0.19 | 0.1 | 0.13 | 0.29 | 0.55 | ||||
| 0.06 | 0.096 | 0.24 | 0.08 | 0.53 | 0.96 | ||||
| 0.3 | 0.67 | 0.85 | 0.11 | 0.74 | 0.24 | ||||
| 0.15 | 0.77 | 0.32 | 0.33 | 0.11 | 0.85 | ||||
| 0.04 | 0.3 | 0.23 | 0.49 | 0.46 | 0.071 | ||||
| 0.25 | 0.91 | 1 | 0.1 | 0.091 | |||||
| 0.12 | 0.76 | 0.42 | 0.12 | 0.4 | 0.54 | ||||
| 0.16 | 0.98 | 0.5 | 0.28 | 0.15 | |||||
| 0.2 | 0.45 | 0.05 | 0.3 | 0.24 | |||||
| 0.25 | 0.95 | 0.75 | 0.21 | 0.18 | 0.3 | ||||
| 0.14 | 0.37 | 0.49 | 0.24 | 0.18 | |||||
| 0.32 | 0.51 | 0.75 | 0.2 | 0.86 | 0.16 | ||||
| 0.17 | 0.57 | 0.36 | 0.03 | 0.28 | 0.24 | ||||
| 0.05 | 0.2 | 0.24 | |||||||
| 0.09 | 0.085 | 0.98 | |||||||
| 0.12 | 0.11 | 0.14 | |||||||
Results of association tests for tagging SNPs from all candidate genes screened in the extreme lower and upper CCT quintiles derived from the 956 normal individuals of the entire BMES cohort. Both the lower and upper quintiles contained 188 subjects each. P values are given for both the dominant and recessive models, with values in bold considered significant at the p<0.05 level. In the table, MAF=minor allele frequency.
Association of FBN1 and PAX6 SNPs with CCT in the full cohort.
| C/C | 0.63 | 541.3±32.4 | 0.81 | 0.94 | ||||
| C/T | 0.32 | 535.9±32.4 | ||||||
| T/T | 0.05 | 538.2±32 | ||||||
| T/T | 0.70 | 541.6±33.2 | 0.09 | 0.68 | 0.11 | 0.59 | ||
| T/A | 0.27 | 536.8±31.8 | ||||||
| A/A | 0.03 | 543±29.3 | ||||||
| G/G | 0.50 | 536.7±33.3 | 0.8 | 0.72 | ||||
| G/A | 0.42 | 542.1±31.9 | ||||||
| A/A | 0.08 | 540.2±30.7 | ||||||
Genotype frequencies and mean CCT values for each genotype of selected SNPs from FBN1 and PAX6 typed in 956 subjects from the full BMES cohort. P values are calculated for both dominant and recessive modes of inheritance with the adjusted p value corrected for sex and age. Values in bold are considered significant at the p<0.05 level. In the table, SD=standard deviation.
Association of haplotypes in FBN1 with CCT in the full cohort.
| 1 | T | A | 0.10 | 0.138 | 0.073 | 0.534 |
| 2 | T | T | 0.11 | 0.147 | 0.133 | 0.810 |
| 3 | C | A | 0.06 | 0.548 | 0.580 | NA |
| 4 | C | T | 0.73 | 0.027 | 0.589 | |
A two SNP haplotype was constructed from FBN1 SNPs using rs17352842 (SNP 1) and rs9806323 (SNP 2). This haplotype was assessed in 956 subjects from the full BMES cohort and tested for association with CCT as a continuous variable. Additive, dominant and recessive modes of inheritance were analyzed and values in bold survived Bonferroni correction for the four observed haplotypes. Values were considered significant at the p<0.05 level following correction.
Association of haplotypes in PAX6 with CCT in the full cohort.
| 1 | G | C | 0.63 | 0.369 | ||
| 2 | G | T | 0.06 | 0.301 | 0.326 | 0.678 |
| 3 | A | C | 0.31 | 0.025 | 0.579 | |
A two SNP haplotype was constructed from PAX6 SNPs using rs3026398 (SNP 1) and rs662702 (SNP 2). This haplotype was assessed in 956 subjects from the full BMES cohort and tested for association with CCT as a continuous variable. Additive, dominant and recessive modes of inheritance were analyzed and values in bold survived Bonferroni correction for the three observed haplotypes. Values were considered significant at the p<0.05 level following correction.