Predicted Trait | |
Reported Trait | Lung cancer |
Mapped Trait(s) | lung adenocarcinoma (EFO_0000571) |
Score Construction | |
PGS Name | PRS_LC_C |
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 |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 19 |
Effect Weight Type | ln(OR) |
PGS Source | |
PGS Catalog Publication (PGP) ID | PGP000049 |
Citation (link to publication) | Dai J et al. Lancet Respir Med (2019) |
Ancestry Distribution | |
Source of Variant Associations (GWAS) | European: 51.1% East Asian: 48.9% 54,475 individuals (100%) |
PGS Evaluation | East Asian: 100% 2 Sample Sets |
Study Identifiers | Sample Numbers | Sample Ancestry | Cohort(s) |
---|---|---|---|
GWAS Catalog: GCST008834 Europe PMC: 31326317 |
26,655 individuals | East Asian | NR |
GWAS Catalog: GCST008834 Europe PMC: 31326317 |
27,820 individuals | European | NR |
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 |
---|---|---|---|---|---|---|---|---|
PPM000190 | PSS000109| East Asian Ancestry| 95,408 individuals |
PGP000049 | Dai J et al. Lancet Respir Med (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 | — |
PPM015573 | PSS009987| East Asian Ancestry| 19,546 individuals |
PGP000387 | Qin N et al. Lancet Oncol (2022) |Ext. |
Reported Trait: Lung cancer | — | — | Odds ratio (OR, high vs low risk): 2.18 [2.00, 2.38] | — | — |
PPM015575 | PSS009987| East Asian Ancestry| 19,546 individuals |
PGP000387 | Qin N et al. Lancet Oncol (2022) |Ext. |
Reported Trait: Lung cancer x autosomal mosaic loss abnormalities interaction | OR: 2.36 [1.09, 5.08] | — | — | — | — |
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 |
---|---|---|---|---|---|---|---|---|
PSS009987 | — | — | [ ,
63.0 % Male samples |
— | East Asian (Chinese) |
— | NR | NJLCC |
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 | [ ,
42.93 % Male samples |
Mean = 53.67 years Se = 10.98 years |
East Asian (Chinese) |
— | CKB | — |