Polygenic Score (PGS) ID: PGS000209

Predicted Trait
Reported Trait Thyroid cancer
Mapped Trait(s) thyroid carcinoma (EFO_0002892)
Released in PGS Catalog: July 1, 2020
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Score Details

Score Construction
PGS Name TC10_UKB
Development Method
Name Genome-wide significant variants
Parameters NR
Variants
Original Genome Build GRCh38
Number of Variants 10
Effect Weight Type log(OR)
PGS Source
PGS Catalog Publication (PGP) ID PGP000085
Citation (link to publication) Liyanarachchi S et al. Proc Natl Acad Sci U S A (2020)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 100%
290,551 individuals (100%)
PGS Evaluation
European: 100%
1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
—
[
  • 3,001 cases
  • , 287,550 controls
]
 European UKB, 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
PPM000633 PSS000343|
European Ancestry|
408,479 individuals
 PGP000085 |
Liyanarachchi S et al. Proc Natl Acad Sci U S A (2020)
 Reported Trait: Thyroid cancer — AUROC: 0.694 [0.673, 0.716] — gender, birth year AUROC (Clinical factors alone) = 0.629 [0.606 - 0.651]

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
PSS000343 Cases were ascertained using ICD-10 C73 (PTC, FTC, cancer/carcinoma, and rare nonmedullary) —
[
  • 534 cases
  • , 407,945 controls
]
,
45.97 % Male samples
 — European — UKB —