SCREENING POTENTIAL ALLELE-FREQUENCY DISEQUILIBRIUM IN DATA FROM AFFYMETRIX GENE EXPRESSION ARRAYS

摘要

The popular Affymetrix human gene expression analysis arrays contain oligonucleotide probes that overlap with thousands of known single nuclcotidc polymorphism sites. These allele-spccific probes provide the possibility of screening allele-frequency difference in existing GeneChip data. We explored analysis procedures that can detect allele-specific signals of known SNPs in different sample groups. Our analysis results and independent genotyping data show it is feasible to utilize these allele-specific probes to screen potential allele-frequency disequilibrium in large-scale GeneChip-based expression profiling projects.