Polygenic Score (PGS) ID: PGS000386

Predicted Trait
Reported Trait Pancreatic cancer
Mapped Trait(s) pancreatic carcinoma (EFO_0002618)
Additional Trait Information PheCode 157
Released in PGS Catalog: Dec. 15, 2020
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Score Details

Score Construction
PGS Name PRSWEB_PHECODE157_GWAS-Catalog-r2019-05-03-X157_PT_UKB_20200608
Variants
Original Genome Build GRCh37
Number of Variants 10
Development Method
Name P&T
Parameters LD Clumping (MAF >= 1%, r^2 <= 0.1) & P<=5e-09
PGS Source
PGS Catalog Publication (PGP) ID PGP000118
Citation (link to publication) Fritsche LG et al. Am J Hum Genet (2020)

Contributing Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry
GWAS Catalog: GCST005434
EuropePMC: 29422604		 21,536 individuals European
GWAS Catalog: GCST003758
EuropePMC: 27579533		 13,952 individuals European
GWAS Catalog: GCST001749
EuropePMC: 23180869		 642 individuals European
GWAS Catalog: GCST002553
EuropePMC: 25086665		 6,785 individuals European
GWAS Catalog: GCST000456
EuropePMC: 19648918		 3,576 individuals European
Score Development/Training
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
PheCode:157; ICD9:157, 157.0, 157.1, 157.2, 157.3, 157.4, 157.8, 157.9; ICD10:C25.0, C25.1, C25.2, C25.3, C25.4, C25.7, C25.8, C25.9 —
[
  • 332 cases
  • , 3,318 controls
]
 — European — UKB —

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 ID) 		PGS Sample Set ID
(PSS ID) 		Performance Source Trait PGS Effect Sizes
(per SD change) 		PGS Classification Metrics Other Metrics Covariates Included in the Model PGS Performance: Other Relevant Information
PPM001071 PSS000565 PGP000118
Fritsche LG et al. (2020) 		Reported Trait: Pancreatic cancer OR: 1.342 [1.199, 1.503]
β: 0.294 (0.0577)		 AUROC: 0.579 [0.548, 0.611] Nagelkerke's Pseudo-R²: 0.0157
Brier score: 0.0822
Odds Ratio (OR, top 1% vs. Rest): 1.64 [0.655, 4.12]		 age, sex, batch PCs 1-4 Cancer PRSweb PheWAS Results: PRSWEB_PHECODE157_GWAS-Catalog-r2019-05-03-X157_PT_UKB_20200608

Evaluated Samples

PGS Sample Set ID
(PSS ID) 		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
PSS000565 PheCode:157; ICD9:157, 157.0, 157.1, 157.2, 157.3, 157.4, 157.8, 157.9; ICD10:C25.0, C25.1, C25.2, C25.3, C25.4, C25.7, C25.8, C25.9 —
[
  • 327 cases
  • , 3,264 controls
]
 — European — UKB —