| Publication Information (EuropePMC) | |
| Title | Assessing Lung Cancer Absolute Risk Trajectory Based on a Polygenic Risk Model. |
| PubMed ID | 33472890(Europe PMC) |
| doi | 10.1158/0008-5472.can-20-1237 |
| Publication Date | Jan. 20, 2021 |
| Journal | Cancer Res |
| Author(s) | Hung RJ, Warkentin MT, Brhane Y, Chatterjee N, Christiani DC, Landi MT, Caporaso NE, Liu G, Johansso... n M, Albanes D, Marchand LL, Tardon A, Rennert G, Bojesen SE, Chen C, Field JK, Kiemeney LA, Lazarus P, Zienolddiny S, Lam S, Andrew AS, Arnold SM, Aldrich MC, Bickeböller H, Risch A, Schabath MB, McKay JD, Brennan P, Amos CI.Show more |
Polygenic Score ID & Name
|
PGS Publication ID (PGP)
|
Reported Trait
|
Mapped Trait(s) (Ontology)
|
Number of Variants
|
Ancestry distribution GWAS Dev Eval |
Scoring File (FTP Link)
|
|---|---|---|---|---|---|---|
| PGS000740 (PRS128_LC) | PGP000148 | Hung RJ et al. Cancer Res (2021) | Lung cancer | lung carcinoma | 128 | https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000740/ScoringFiles/PGS000740.txt.gz |
PGS Performance Metric ID (PPM) |
Evaluated Score
|
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 |
|---|---|---|---|---|---|---|---|---|---|
| PPM001779 | PGS000740 (PRS128_LC) | PSS000912| European Ancestry| 335,931 individuals | PGP000148 | Hung RJ et al. Cancer Res (2021) | Reported Trait: Lung cancer | OR: 1.26 [1.2, 1.32] | — | Odds Ratio (OR, top 10% vs low risk): 2.39 [1.92, 3.0] | Age, sex, PCs(1-5) | 14/128 were omitted from the analysis (missing in HRC panel) |
| PPM001780 | PGS000740 (PRS128_LC) | PSS000921| European Ancestry| 183,671 individuals | PGP000148 | Hung RJ et al. Cancer Res (2021) | Reported Trait: Lung cancer in individuals who have never smoked | OR: 1.28 [1.13, 1.46] | — | — | Age, sex, PCs(1-5) | 14/128 were omitted from the analysis (missing in HRC panel) |
| PPM001781 | PGS000740 (PRS128_LC) | PSS000920| European Ancestry| 118,310 individuals | PGP000148 | Hung RJ et al. Cancer Res (2021) | Reported Trait: Lung cancer in individuals who are former smokers | OR: 1.25 [1.17, 1.34] | — | — | Age, sex, PCs(1-5) | 14/128 were omitted from the analysis (missing in HRC panel) |
| PPM001782 | PGS000740 (PRS128_LC) | PSS000919| European Ancestry| 33,950 individuals | PGP000148 | Hung RJ et al. Cancer Res (2021) | Reported Trait: Lung cancer in individuals who currently smoke | OR: 1.28 [1.19, 1.38] | — | — | Age, sex, PCs(1-5) | 14/128 were omitted from the analysis (missing in HRC panel) |
| PPM001783 | PGS000740 (PRS128_LC) | PSS000918| European Ancestry| 287,620 individuals | PGP000148 | Hung RJ et al. Cancer Res (2021) | Reported Trait: Lung cancer in individuals with a family history of lung cancer | OR: 1.16 [1.05, 1.27] | — | — | Age, sex, PCs(1-5) | 14/128 were omitted from the analysis (missing in HRC panel) |
| PPM001784 | PGS000740 (PRS128_LC) | PSS000916| European Ancestry| 42,540 individuals | PGP000148 | Hung RJ et al. Cancer Res (2021) | Reported Trait: Lung cancer in individuals with no family history of lung cancer | OR: 1.29 [1.22, 1.36] | — | — | Age, sex, PCs(1-5) | 14/128 were omitted from the analysis (missing in HRC panel) |
| PPM001785 | PGS000740 (PRS128_LC) | PSS000917| European Ancestry| 330,046 individuals | PGP000148 | Hung RJ et al. Cancer Res (2021) | Reported Trait: Lung cancer in individuals with COPD | OR: 1.26 [1.09, 1.46] | — | — | Age, sex, PCs(1-5) | 14/128 were omitted from the analysis (missing in HRC panel) |
| PPM001786 | PGS000740 (PRS128_LC) | PSS000915| European Ancestry| 5,491 individuals | PGP000148 | Hung RJ et al. Cancer Res (2021) | Reported Trait: Lung cancer in individuals with no COPD diagnosis | OR: 1.26 [1.2, 1.32] | — | — | Age, sex, PCs(1-5) | 14/128 were omitted from the analysis (missing in HRC panel) |
| PPM001787 | PGS000740 (PRS128_LC) | PSS000913| European Ancestry| 167,955 individuals | PGP000148 | Hung RJ et al. Cancer Res (2021) | Reported Trait: Lung cancer (absolute risk) | β: 0.663 | — | — | Age, sex, PCs(1-5) | 14/128 were omitted from the analysis (missing in HRC panel) |
| PPM001788 | PGS000740 (PRS128_LC) | PSS000914| European Ancestry| 67,186 individuals | PGP000148 | Hung RJ et al. Cancer Res (2021) | Reported Trait: Lung cancer in individuals who have never smoked | — | AUROC: 0.687 [0.628, 0.746] | — | Age, sex, education, body mass index, personal history of cancer, family history of lung cancer, lun... g functionShow more | 14/128 were omitted from the analysis (missing in HRC panel) |
| PPM001789 | PGS000740 (PRS128_LC) | PSS000913| European Ancestry| 167,955 individuals | PGP000148 | Hung RJ et al. Cancer Res (2021) | Reported Trait: Early onset lung cancer (< 50 years) | — | AUROC: 0.811 [0.701, 0.922] | — | Age, sex, education, body mass index, personal history of cancer, family history of lung cancer, lun... g functionShow more | 14/128 were omitted from the analysis (missing in HRC panel) |
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
|
|---|---|---|---|---|---|---|---|---|
| PSS000912 | Cases are individuals with a lung cancer diagnosis. Lung cancer diagnosis was obtained through recor... d linkage with death and cancer registries with the follow‐up time up to date of death, lung cancer diagnosis, or March 31, 2016 (in England and Wales) and Oct 31, 2015 (in Scotland) per censor date defined by UKB. To minimize the possibility of including lung cancer metastasis, we excluded lung cancer that occurred within 5 years of different primary cancer.Show more | — | [ ,
46.28 % Male samples | — | European | — | UKB | — |
| PSS000913 | — | — | 167,955 individuals | — | European | — | UKB | — |
| PSS000914 | — | — | 67,186 individuals | — | European | — | UKB | — |
| PSS000915 | Cases are individuals with a lung cancer diagnosis. Lung cancer diagnosis was obtained through recor... d linkage with death and cancer registries with the follow‐up time up to date of death, lung cancer diagnosis, or March 31, 2016 (in England and Wales) and Oct 31, 2015 (in Scotland) per censor date defined by UKB. To minimize the possibility of including lung cancer metastasis, we excluded lung cancer that occurred within 5 years of different primary cancer.Show more | — | [
| — | European | — | UKB | — |
| PSS000916 | Cases are individuals with a lung cancer diagnosis. Lung cancer diagnosis was obtained through recor... d linkage with death and cancer registries with the follow‐up time up to date of death, lung cancer diagnosis, or March 31, 2016 (in England and Wales) and Oct 31, 2015 (in Scotland) per censor date defined by UKB. To minimize the possibility of including lung cancer metastasis, we excluded lung cancer that occurred within 5 years of different primary cancer.Show more | — | [
| — | European | — | UKB | — |
| PSS000917 | Cases are individuals with a lung cancer diagnosis. Lung cancer diagnosis was obtained through recor... d linkage with death and cancer registries with the follow‐up time up to date of death, lung cancer diagnosis, or March 31, 2016 (in England and Wales) and Oct 31, 2015 (in Scotland) per censor date defined by UKB. To minimize the possibility of including lung cancer metastasis, we excluded lung cancer that occurred within 5 years of different primary cancer.Show more | — | [
| — | European | — | UKB | — |
| PSS000918 | Cases are individuals with a lung cancer diagnosis. Lung cancer diagnosis was obtained through recor... d linkage with death and cancer registries with the follow‐up time up to date of death, lung cancer diagnosis, or March 31, 2016 (in England and Wales) and Oct 31, 2015 (in Scotland) per censor date defined by UKB. To minimize the possibility of including lung cancer metastasis, we excluded lung cancer that occurred within 5 years of different primary cancer.Show more | — | [
| — | European | — | UKB | — |
| PSS000919 | Cases are individuals with a lung cancer diagnosis. Lung cancer diagnosis was obtained through recor... d linkage with death and cancer registries with the follow‐up time up to date of death, lung cancer diagnosis, or March 31, 2016 (in England and Wales) and Oct 31, 2015 (in Scotland) per censor date defined by UKB. To minimize the possibility of including lung cancer metastasis, we excluded lung cancer that occurred within 5 years of different primary cancer.Show more | — | [
| — | European | — | UKB | — |
| PSS000920 | Cases are individuals with a lung cancer diagnosis. Lung cancer diagnosis was obtained through recor... d linkage with death and cancer registries with the follow‐up time up to date of death, lung cancer diagnosis, or March 31, 2016 (in England and Wales) and Oct 31, 2015 (in Scotland) per censor date defined by UKB. To minimize the possibility of including lung cancer metastasis, we excluded lung cancer that occurred within 5 years of different primary cancer.Show more | — | [
| — | European | — | UKB | — |
| PSS000921 | Cases are individuals with a lung cancer diagnosis. Lung cancer diagnosis was obtained through recor... d linkage with death and cancer registries with the follow‐up time up to date of death, lung cancer diagnosis, or March 31, 2016 (in England and Wales) and Oct 31, 2015 (in Scotland) per censor date defined by UKB. To minimize the possibility of including lung cancer metastasis, we excluded lung cancer that occurred within 5 years of different primary cancer.Show more | — | [
| — | European | — | UKB | — |