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(Variants and weights)

Polygenic Score (PGS) ID: PGS000083

Predicted Trait

Reported Trait: Pancreatic cancer
Mapped Trait(s) (Experimental Factor Ontology (EFO) IDs): pancreatic carcinoma

Score Details

Name: CC_Pancreas

Original Genome Build: GRCh37
Number of Variants: 22

PGS Development Method: Genome-wide significant SNPs
PGS Development Details/Relevant Parameters: P < 5x10-8, MAF > 1%, biallelic SNPs, LD-thin r2 > 0.3

Citation: Graff RE et al. bioRxiv (2020) | PGS Catalog Publication ID: PGP000050

Contributing Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry
GWAS Catalog: GCST002991
PubMed: 26098869
7,046 individuals NR
GWAS Catalog: GCST002991
PubMed: 26098869
636 individuals NR, Hispanic or Latin American, African unspecified, Asian unspecified
GWAS Catalog: GCST002991
PubMed: 26098869
7,320 individuals European
GWAS Catalog: GCST005434
PubMed: 29422604
21,536 individuals European
GWAS Catalog: GCST002553
PubMed: 25086665
6,785 individuals European
GWAS Catalog: GCST003758
PubMed: 27579533
13,952 individuals European

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 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
PPM000203 PSS000122 Graff RE et al. (2020) Reported Trait: Pancreatic cancer OR: 1.44 [1.33 - 1.55] Genotyping reagent kit (GERA cohort only), genotyping array (UK Biobank only), age, sex, 10 PCs. Results from meta-analysis of GERA and UKB

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
PSS000122 Cancer diagnoses were obtained from reigstry data in GERA, and ICD-9/10 codes mapped to ICD-O-3 codes in UK Biobank. Cancers for this phenotype were classified using the following SEER site recode(s): 21100 411,019 individuals
[ 665 cases, 410,354 controls]
0.46 % Male samples
European GERA, UKB