A genome-wide association study meta-analysis of 4,533 individuals with celiac disease (cases) and 10,750 controls of European descent. Genotyping of the studies were performed on Illumina Infinium HumanHap300 beadchip. A further 231,362 additional non-HLA markers from Illumina Hap550 marker set were tested for association in 3,796 cases and 8,154 controls. Genotype imputation using BEAGLE software and HapMap3 reference samples for samples typed on HumanHap300 chip was performed. After QC SNPs from 113 loci were selected for replication in 4,918 cases and 5,684 controls. All tests for association were conducted using PLINK v1.07 allowing the discovery of 13 novel celiac disease susceptibility loci.
- Call rate >95%.
- HWE (P<0.0001).
- Manual checking of discovery SNP signal clouds for artefacts.
- Call rate >98%
- Non-european descent via EIGENSTRAT analysis.
- Duplicates and first degree relatives.
- Incompatible recorded gender.
GDXHsS00038 meets the following criteria: