PGS Publication: PGP000028

Publication Information (EuropePMC)
Title Accurate and robust genomic prediction of celiac disease using statistical learning.
PubMed ID 24550740(Europe PMC)
doi 10.1371/journal.pgen.1004137
Publication Date Feb. 13, 2014
Journal PLoS Genet
Author(s) Abraham G, Tye-Din JA, Bhalala OG, Kowalczyk A, Zobel J, Inouye M.
Released in PGS Catalog: Dec. 18, 2019

Associated Polygenic Score(s)

Filter PGS by Participant Ancestry
Individuals included in:
G - Source of Variant Associations (GWAS)
D - Score Development/Training
E - PGS Evaluation
List of ancestries includes:
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Ancestry legend
Multi-ancestry (including European)
Multi-ancestry (excluding European)
African
East Asian
South Asian
Additional Asian Ancestries
European
Greater Middle Eastern
Hispanic or Latin American
Additional Diverse Ancestries
Not Reported

PGS Developed By This Publication

Polygenic Score ID & Name PGS Publication ID (PGP) Reported Trait Mapped Trait(s) (Ontology) Number of Variants Ancestry distribution
GWAS
Dev
Eval
 Scoring File (FTP Link)
PGS000040
(GRS_CeD)
 PGP000028 |
Abraham G et al. PLoS Genet (2014)
 Coeliac disease celiac disease 228
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000040/ScoringFiles/PGS000040.txt.gz

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 ID (PPM) 		Evaluated Score PGS Sample Set ID
(PSS) 		Performance Source Trait PGS Effect Sizes
(per SD change) 		Classification Metrics Other Metrics Covariates Included in the Model PGS Performance:
Other Relevant Information
PPM000093 PGS000040
(GRS_CeD)
 PSS000059|
European Ancestry|
2,476 individuals
 PGP000028 |
Abraham G et al. PLoS Genet (2014)
 Reported Trait: Coeliac disease — AUROC: 0.9 — — —
PPM000094 PGS000040
(GRS_CeD)
 PSS000061|
European Ancestry|
1,040 individuals
 PGP000028 |
Abraham G et al. PLoS Genet (2014)
 Reported Trait: Coeliac disease — AUROC: 0.87 — — —
PPM000095 PGS000040
(GRS_CeD)
 PSS000062|
European Ancestry|
1,649 individuals
 PGP000028 |
Abraham G et al. PLoS Genet (2014)
 Reported Trait: Coeliac disease — AUROC: 0.86 — — —
PPM000096 PGS000040
(GRS_CeD)
 PSS000063|
European Ancestry|
2,200 individuals
 PGP000028 |
Abraham G et al. PLoS Genet (2014)
 Reported Trait: Coeliac disease — AUROC: 0.87 — — —
PPM000097 PGS000040
(GRS_CeD)
 PSS000060|
European Ancestry|
10,304 individuals
 PGP000028 |
Abraham G et al. PLoS Genet (2014)
 Reported Trait: Coeliac disease — AUROC: 0.87 — — —

Evaluated Samples

PGS Sample Set ID
(PSS) 		Phenotype Definitions and Methods Participant Follow-up Time Sample Numbers Age of Study Participants Sample Ancestry Additional Ancestry Description Cohort(s) Additional Sample/Cohort Information
PSS000059 — —
[
  • 647 cases
  • , 1,829 controls
]
 — European
(Finnish)		 — FINRISK, Health2000 —
PSS000060 — —
[
  • 5,907 cases
  • , 4,397 controls
]
 — European
(British)		 — NR Immunochip
PSS000061 — —
[
  • 497 cases
  • , 543 controls
]
 — European
(Italian)		 — NR —
PSS000062 — —
[
  • 803 cases
  • , 846 controls
]
 — European
(Dutch)		 — NR —
PSS000063 — —
[
  • 778 cases
  • , 1,422 controls
]
 — European
(British)		 — NR —