Predicted Trait | |
Reported Trait | Prostate cancer |
Mapped Trait(s) | prostate carcinoma (EFO_0001663) |
Score Construction | |
PGS Name | CC_Prostate |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 161 |
Development Method | |
Name | Genome-wide significant SNPs |
Parameters | P < 5x10-8, MAF > 1%, biallelic SNPs, LD-thin r2 > 0.3 |
PGS Source | |
PGS Catalog Publication (PGP) ID | PGP000050 |
Citation (link to publication) | Graff RE et al. bioRxiv (2020) Preprint |
Study Identifiers | Sample Numbers | Sample Ancestry |
---|---|---|
GWAS Catalog: GCST002606 EuropePMC: 25217961 |
67,543 individuals | European |
GWAS Catalog: GCST002606 EuropePMC: 25217961 |
2,080 individuals | Hispanic or Latin American |
GWAS Catalog: GCST002606 EuropePMC: 25217961 |
6,954 individuals | East Asian |
GWAS Catalog: GCST002606 EuropePMC: 25217961 |
10,463 individuals | Sub-Saharan African, African American or Afro-Caribbean |
GWAS Catalog: GCST002890 EuropePMC: 25939597 |
7,541 individuals | European |
GWAS Catalog: GCST000152 EuropePMC: 18264097 |
3,748 individuals | European |
GWAS Catalog: GCST001942 EuropePMC: 23535732 |
22,548 individuals | European |
GWAS Catalog: GCST003587 EuropePMC: 27197191 |
123,671 individuals | European |
GWAS Catalog: GCST002944 EuropePMC: 26034056 |
3,226 individuals | East Asian |
GWAS Catalog: GCST002944 EuropePMC: 26034056 |
2,251 individuals | African American or Afro-Caribbean |
GWAS Catalog: GCST002944 EuropePMC: 26034056 |
3,629 individuals | Hispanic or Latin American |
GWAS Catalog: GCST002944 EuropePMC: 26034056 |
37,272 individuals | European |
GWAS Catalog: GCST002421 EuropePMC: 24753544 |
2,950 individuals | European |
GWAS Catalog: GCST001148 EuropePMC: 21743467 |
13,560 individuals | European |
GWAS Catalog: GCST002413 EuropePMC: 24740154 |
5,051 individuals | European |
EuropePMC: 2688139 | [ ,
100.0 % Male samples |
East Asian (Han Chinese) |
GWAS Catalog: GCST001338 EuropePMC: 22130093 |
545 individuals | NR |
GWAS Catalog: GCST001147 EuropePMC: 21743057 |
7,240 individuals | European |
GWAS Catalog: GCST006085 EuropePMC: 29892016 |
140,254 individuals | European |
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 |
---|---|---|---|---|---|---|---|---|
PPM000204 | PSS000123 | PGP000050 Graff RE et al. bioRxiv (2020) Pre |
Reported Trait: Prostate cancer | OR: 1.44 [1.41, 1.47] | — | — | Genotyping reagent kit (GERA cohort only), genotyping array (UK Biobank only), age, 10 PCs. | Results from meta-analysis of GERA and UKB |
PGS Sample Set ID (PSS ID) |
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 |
---|---|---|---|---|---|---|---|---|
PSS000123 | Cancer diagnoses were obtained from reigstry data in GERA, and ICD-9/10 codes mapped to ICD-O-3 codes in UK Biobank. Cancers for this phenotype were classified using the following SEER site recode(s): 28010 | — | [ ,
100.0 % Male samples |
— | European | — | GERA, UKB | — |