Polygenic Score (PGS) ID: PGS000070

Predicted Trait
Reported Trait Lung cancer
Mapped Trait(s) lung adenocarcinoma (EFO_0000571)
Released in PGS: Feb. 12, 2020

Score Details

Score Construction
PGS Name PRS_LC_C
Variants
Original Genome Build GRCh37
Number of Variants 19
Development Method
Name Genomewide-significant SNPs, filtered to be specific to Chinese ancestry individuals
Parameters Meta-anlaysis p-value ≤5·0 × 10−8; MAF < 0.01 (in Chinese populations); r2 >= 0.1; Chinese-specific association p-value < 0.00125
PGS Source
PGS Catalog Publication (PGP) ID PGP000049
Citation (link to publication) Dai J et al. Lancet Respir Med (2019)

Contributing Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry
GWAS Catalog: GCST008834
EuropePMC: 31326317
26,655 individuals East Asian
GWAS Catalog: GCST008834
EuropePMC: 31326317
27,820 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 ID)
PGS Sample Set ID
(PSS ID)
Performance Source Trait PGS Effect Sizes
(per SD change)
PGS Classification Metrics Other Metrics Covariates Included in the Model PGS Performance: Other Relevant Information
PPM000190 PSS000109 PGP000049
Dai J et al. (2019)
Reported Trait: Incident lung cancer HR (High genetic risk: top 5% vs. bottom 5% of PRS): 2.37[1.64, 3.44]
HR (Intermediate genetic risk: 5-95% vs. bottom 5% of PRS): 1.6[1.17, 2.2]
age, sex, source of region, smoking status

Evaluated Samples

PGS Sample Set ID
(PSS ID)
Detailed Phenotype Description Participant Follow-up Time Sample Numbers Age of Study Participants Sample Ancestry Additional Ancestry Description Cohort(s) Additional Sample/Cohort Information
PSS000109 Participants were followed-up for cancer events mainly through linkage with official death certificates, chronic disease registries, and the Chinese national health insurance system. Median = 10.44 years
[
  • 1,316 cases
  • , 94,092 controls
]
,
42.93 % Male samples
Mean = 53.67 years
Se = 10.98 years
East Asian
(Chinese)
CKB