Polygenic Score (PGS) ID: PGS000055

Predicted Trait
Reported Trait Colorectal cancer
Mapped Trait(s) colorectal cancer (EFO_0005842)
Released in PGS Catalog: Dec. 18, 2019
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Score Details

Score Construction
PGS Name PRS_CRC
Variants
Original Genome Build hg19
Number of Variants 76
Development Method
Name Known susceptibility variants (genome-wide significant SNPs)
Parameters Replicated p-values (discovery p-value < 5e-8, replication p-value < 0.05)
PGS Source
PGS Catalog Publication (PGP) ID PGP000040
Citation (link to publication) Schmit SL et al. J Natl Cancer Inst (2019)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 91.1%
African: 8.9%
74,409 individuals (100%)
PGS Evaluation
East Asian: 50%
European: 50%
2 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry
GWAS Catalog: GCST006131
Europe PMC: 29917119
6,597 individuals African American or Afro-Caribbean
GWAS Catalog: GCST006131
Europe PMC: 29917119
67,812 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 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
PPM000139 PSS000087|
European Ancestry|
61,335 individuals
PGP000040 |
Schmit SL et al. J Natl Cancer Inst (2019)
Reported Trait: Colorectal cancer Familial relative risk explained (%): 11.9 [9.2, 15.5]
PRS percentile threshold for Odds Ratio > 2: 95.7
age, sex, PCs, PC*study
PPM000140 PSS000086|
East Asian Ancestry|
21,630 individuals
PGP000040 |
Schmit SL et al. J Natl Cancer Inst (2019)
Reported Trait: Colorectal cancer PRS percentile threshold for Odds Ratio > 2: 99.1 age, sex, PCs, PC*study

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
PSS000086
[
  • 8,580 cases
  • , 13,050 controls
]
East Asian 8 cohorts
  • COLON
  • ,CORSA
  • ,DACHS
  • ,EPIC
  • ,HPFS
  • ,MGI
  • ,NHS
  • ,UKB
PSS000087
[
  • 12,952 cases
  • , 48,383 controls
]
European 8 cohorts
  • COLON
  • ,CORSA
  • ,DACHS
  • ,EPIC
  • ,HPFS3
  • ,MGI
  • ,NHS3
  • ,UKB