Polygenic Score (PGS) ID: PGS000208

Predicted Trait
Reported Trait Thyroid cancer
Mapped Trait(s) thyroid carcinoma (EFO_0002892)
Released in PGS Catalog: July 1, 2020
Download Score FTP directory
Terms and Licenses
PGS obtained from the Catalog should be cited appropriately, and used in accordance with any licensing restrictions set by the authors. See EBI Terms of Use (https://www.ebi.ac.uk/about/terms-of-use/) for additional details.

Score Details

Score Construction
PGS Name TC10_Iceland
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%
419,036 individuals (100%)
PGS Evaluation
European: 100%
1 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
—
[
  • 2,532 cases
  • , 416,504 controls
]
 European NBS, 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) 		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
PPM000632 PSS000341|
European Ancestry|
130,279 individuals
 PGP000085 |
Liyanarachchi S et al. Proc Natl Acad Sci U S A (2020)
 Reported Trait: Thyroid cancer — AUROC: 0.751 [0.736, 0.768] — gender, birth year, family history of disease (1st or 2nd degree relative) AUROC (Clinical factors alone) = 0.697 [0.680 - 0.714]

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
PSS000341 Cases were ascertained using ICD-10 C73 (PTC, FTC, cancer/carcinoma, and rare nonmedullary) —
[
  • 723 cases
  • , 129,556 controls
]
,
46.41 % Male samples
 — European — deCODE —