Polygenic Score (PGS) ID: PGS000782

Predicted Trait
Reported Trait Bladder cancer
Mapped Trait(s) urinary bladder carcinoma (MONDO_0004986)
Released in PGS Catalog: May 28, 2021
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Score Details

Score Construction
PGS Name CC_Bladder_IV
Development Method
Name 15 variants from Graff et al (PGS000071) with inverse variant weights
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 15
Effect Weight Type Inverse-variance weighting
PGS Source
PGS Catalog Publication (PGP) ID PGP000186
Citation (link to publication) Kachuri L et al. Nat Commun (2020)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 100%
464,396 individuals (100%)
PGS Evaluation
European: 100%
1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
GWAS Catalog: GCST002243
Europe PMC: 24163127
 18,729 individuals European 16 cohorts
  • ATBC
  • ,BBCS_b
  • ,CPSII
  • ,EAGLE
  • ,EPIC
  • ,FPCC
  • ,FrBCS
  • ,HPFS
  • ,LABCS
  • ,MEC
  • ,NEBCS
  • ,NHS
  • ,PLCO
  • ,SpBCS
  • ,TXBCS
  • ,WHI
Europe PMC: 26732427
[
  • 15,058 cases
  • , 286,270 controls
]
 European 26 cohorts
  • ASHRAM
  • ,ATBC
  • ,BBCS_b
  • ,CPSII
  • ,DBCS
  • ,EAGLE
  • ,EPIC
  • ,FPCC
  • ,FrBCS
  • ,HPFS
  • ,IBCS
  • ,LABCS
  • ,LBCS
  • ,MEC
  • ,MSKBCS
  • ,NBCS
  • ,NCBCS
  • ,NEBCS
  • ,NHS
  • ,NeuBCS
  • ,PLCO
  • ,SANBCS
  • ,SpBCS
  • ,TBCS
  • ,TXBCS
  • ,WHI
GWAS Catalog: GCST000842
Europe PMC: 20972438
 8,652 individuals European ATBC, CPSII, NEBCS, PLCO, SBCS
GWAS Catalog: GCST001153
Europe PMC: 21750109
 43,837 individuals European
(Netherlands)		 ICR, NBCS, NBS, UMC, deCODE
GWAS Catalog: GCST002460
Europe PMC: 24861552
 91,850 individuals European ICR, deCODE

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) 		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
PPM002053 PSS001010|
European Ancestry|
391,888 individuals
 PGP000186 |
Kachuri L et al. Nat Commun (2020)
 Reported Trait: Incident blader cancer HR: 1.3 [1.22, 1.39] AUROC: 0.804
C-index: 0.814 (0.008)		 R²: 0.628 Age at assessment, sex, genotyping array, PCs(1-15), cigarette pack-years, smoking status(never vs. former vs. current), body mass index C-index calculated as a weighted average between 1 and 5 years and AUC at 5 years.

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
PSS001010 Individuals with at least one recorded incident diagnosis of a borderline, in situ, or malignant primary cancer were defined as cases. —
[
  • 890 cases
  • , 390,998 controls
]
 — European — UKB —