Kibriya MG et al. – A genome-wide association (GWA) pilot study in early-onset breast cancer shows several possible significant regions with possibly significant known candidate genes, such as genes encoding fibroblast growth factor, transforming growth factor, epidermal growth factor Methods
Case–control pilot study to identify genomic regions associated with breast cancer in a GWA
Review of 30 incident invasive breast cancer cases age <45 yr without BRCA1 or BRCA2 deleterious mutations and 30 population controls matched for age, ethnicity, and geographic area
Comparison between cases/controls for 203,477 genotyped single nucleotide polymorphisms (SNPs) by: unconditional logistic regression; conditional logistic regression models adjusting for matched pairs; allelic tests for single marker tests; and haplotype trend regression
Genomic control and EIGENSTRAT methods for correction of population stratification
Overall genotype call rate: 97.13 ± 1.33% for controls; 97.48 ± 1.42% for cases
Results
In single marker analysis, no SNPs were statistically significant after correction for multiple testing
Haplotype association tests, using 90730 tag-SNPs, showed 2 regions in GLG1 and UGT1 genes retained significance after Bonferroni correction
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