Predicted Trait | |
Reported Trait | Colorectal cancer |
Mapped Trait(s) | colorectal carcinoma (EFO_1001951) |
Score Construction | |
PGS Name | best_COADREAD |
Development Method | |
Name | Pruning and Thresholding (P+T) |
Parameters | p < 1×10^-5, r2 < 0.1 |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 61 |
Effect Weight Type | beta |
PGS Source | |
PGS Catalog Publication (PGP) ID | PGP000413 |
Citation (link to publication) | Namba S et al. Cancer Res (2022) |
Ancestry Distribution | |
Source of Variant Associations (GWAS) | European: 95.8% East Asian: 4.2% 125,478 individuals (100%) |
PGS Evaluation | European: 100% 1 Sample Sets |
Study Identifiers
|
Sample Numbers
|
Sample Ancestry
|
Cohort(s)
|
---|---|---|---|
GWAS Catalog: GCST007856 Europe PMC: 30510241 | 5,294 individuals | East Asian | NR |
GWAS Catalog: GCST007856 Europe PMC: 30510241 | 120,184 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 |
---|---|---|---|---|---|---|---|---|
PPM016261 | PSS010076| European Ancestry| 274,069 individuals | PGP000413 | Namba S et al. Cancer Res (2022) | Reported Trait: colorectal cancer | — | AUROC: 0.724 | R²: 0.0115 | age, sex, top 20 genetic principal components | — |
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
|
---|---|---|---|---|---|---|---|---|
PSS010076 | C18, C19, C20 | — | [
| — | European (British) | — | UKB | Controls were samples without any cancer diagnosis or self-reported cancer |