Polygenic Score (PGS) ID: PGS002305

Predicted Trait
Reported Trait Chronic lymphoid leukemia
Mapped Trait(s) lymphoid leukemia (EFO_0004289)
Released in PGS Catalog: June 9, 2022
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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 PRS43_CLL
Development Method
Name Genome-wide significant variants
Parameters r2>=0.93
Variants
Original Genome Build hg19
Number of Variants 43
Effect Weight Type NR
PGS Source
PGS Catalog Publication (PGP) ID PGP000328
Citation (link to publication) Choi J et al. Int J Cancer (2020)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 100%
17,691 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: GCST004146
Europe PMC: 28165464
 17,691 individuals European 22 cohorts
  • ATBC
  • ,BCCA
  • ,CPSII
  • ,ENGELA
  • ,EPIC
  • ,EpiLymph
  • ,HPFS
  • ,Italian_GxE
  • ,MAYO
  • ,MCCS
  • ,MSKCC
  • ,NCI-SEER
  • ,NHS
  • ,NSW
  • ,NYU-WHS
  • ,PLCO
  • ,SCALE
  • ,UCSF
  • ,UCSF2
  • ,UK-CLL
  • ,UTAH
  • ,Yale

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
PPM013034 PSS009656|
European Ancestry|
265 individuals
 PGP000328 |
Choi J et al. Int J Cancer (2020)
 Reported Trait: Chronic lymphoid leukemia — AUROC: 0.57 [0.54, 0.6] — — —
PPM013042 PSS009656|
European Ancestry|
265 individuals
 PGP000328 |
Choi J et al. Int J Cancer (2020)
 Reported Trait: Chronic lymphoid leukemia — — Hazard ratio (HR top 5% vs average): 4.33 [2.92, 6.42] Age, birth cohort, genotyping array, top 10 PCs for ancestry and sex (for nonsex specific cancer only) —

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
PSS009656 chronic lymphoid leukemia (ICD-9 = 204.1 or ICD-10 = C91.1) — 265 individuals — European — UKB —