Publication: Genomic prediction of celiac disease targeting HLA-positive individuals.

Information

PGS Catalog Publication (PGP) ID: PGP000029
PubMed ID: 26244058
doi: 10.1186/s13073-015-0196-5

Publication Date: July 16, 2015

Journal: Genome Med

Authors: Abraham G, Rohmer A, Tye-Din JA, Inouye M.

PGS Associated with PGP000029

PGS Developed By This Study

External PGS Evaluated By This Study

PGS Performance Metrics

Disclaimer: The performance metrics are displayed as reported by the source studies. It is important to note that metrics are not necessarily comparable with each other. For example, metrics depend on the sample characteristics (described by the PGS Catalog Sample Set [PSS] ID), phenotyping, and statistical modelling. Please refer to the source publication for additional guidance on performance.
PGS Performance Metric (PPM) ID Evaluated Score PGS Catalog Sample Set (PSS) ID Performance Source Trait PGS Effect Sizes
(per SD change)
PGS Classification Metrics Other Metrics Covariates Included in PGS Model PGS Performance: Other Relevant Information
PPM000098 PGS000040 (GRS_CeD) PSS000064 Abraham G et al. (2015) Ext. Reported Trait: Coeliac disease AUROC: 0.831 [0.808 - 0.85]
PPM000099 PGS000040 (GRS_CeD) PSS000065 Abraham G et al. (2015) Ext. Reported Trait: Coeliac disease in HLA-DQ2.5 carriers AUROC: 0.669 [0.625 - 0.713]
PPM000100 PGS000041 (GRS-DQ2.5-CeD) PSS000065 Abraham G et al. (2015) Reported Trait: Coeliac disease in HLA-DQ2.5 carriers AUROC: 0.718 [0.676 - 0.761]
PPM000101 PGS000042 (GRS-DQ2.5-CeD-imputed) PSS000065 Abraham G et al. (2015) Reported Trait: Coeliac disease in HLA-DQ2.5 carriers AUROC: 0.73 [0.687 - 0.772]

Evaluated Samples

PGS Catalog Sample Set (PSS) ID Detailed Phenotype Description (e.g. ICD/SNOMED codes used to identify cases) Sample Numbers Sample Ancestry Additional Ancestry Description Cohort(s) Additional Sample/Cohort Information
PSS000064 1,696 individuals
[ 1,259 cases, 437 controls]
European NIDDK
PSS000065 The HLA-DQ2.5-positive subset of NIDDK-CIDR 1,237 individuals
[ 1,094 cases, 143 controls]
European NIDDK HLA alleles were imputed using SNP2HLA