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Coeliac Disease Immunochip dataset

Illumina Immunochip genotype data for coeliac disease and control samples. Data is in PLINK binary format. Calling algorithm for genotypes is based on GenomeStudio (GenTrain), with manual clustering of selected variants (please see published manuscript). Genotypes called in this way may not be exactly identical to those generated by other algorithms - this is particularly relevant for groups wishing to utilise the control data (e.g. 1958 Birth Cohort). Please contact the investigators if you wish to discuss access to other data formats (e.g. .idat).

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID Description Technology Samples
EGAD00010000246 GenoSNP Illumina ImmunoBeadChip - Illuminus 10758
EGAD00010000248 GenoSNP Illumina ImmunoBeadChip - Illuminus 6812
EGAD00010000250 GenoSNP Illumina ImmunoBeadChip - Illuminus 3030
Publications Citations
Dense genotyping identifies and localizes multiple common and rare variant association signals in celiac disease.
Nat Genet 43: 2011 1193-1201
Ancestry-based stratified analysis of Immunochip data identifies novel associations with celiac disease.
Eur J Hum Genet 24: 2016 1831-1834
Amino acid residues in five separate HLA genes can explain most of the known associations between the MHC and primary biliary cholangitis.
PLoS Genet 14: 2018 e1007833
Stochastic search and joint fine-mapping increases accuracy and identifies previously unreported associations in immune-mediated diseases.
Nat Commun 10: 2019 3216
Collagenous Colitis Is Associated With HLA Signature and Shares Genetic Risks With Other Immune-Mediated Diseases.
Gastroenterology 159: 2020 549-561.e8
Two-Sample Mendelian Randomization detects bidirectional causality between gut microbiota and celiac disease in individuals with high genetic risk.
Front Immunol 14: 2023 1082862
Sex bias in celiac disease: XWAS and monocyte eQTLs in women identify TMEM187 as a functional candidate gene.
Biol Sex Differ 14: 2023 86