Predicted Trait | |
Reported Trait | Hematuria |
Mapped Trait(s) | Hematuria (HP_0000790) |
Additional Trait Information | genitourinary |
Score Construction | |
PGS Name | portability-ldpred2_593 |
Development Method | |
Name | LDpred2 (bigsnpr) |
Parameters | LDpred2-auto using HapMap3 variants |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 664,167 |
Effect Weight Type | beta |
PGS Source | |
PGS Catalog Publication (PGP) ID | PGP000263 |
Citation (link to publication) | Privé F et al. Am J Hum Genet (2022) |
Study Identifiers | Sample Numbers | Sample Ancestry | Cohort(s) | Phenotype Definitions & Methods | Age of Study Participants | Participant Follow-up Time | Additional Ancestry Description | Additional Sample/Cohort Information |
---|---|---|---|---|---|---|---|---|
— | 391,124 individuals | European | UKB | — | — | — | UK (+ Ireland) | — |
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 |
---|---|---|---|---|---|---|---|---|
PPM011453 | PSS009338| European Ancestry| 19,287 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Hematuria | — | — | Partial Correlation (partial-r): 0.033 [0.0189, 0.0471] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM011454 | PSS009112| European Ancestry| 4,016 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Hematuria | — | — | Partial Correlation (partial-r): 0.0196 [-0.0114, 0.0506] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM011455 | PSS008666| European Ancestry| 6,420 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Hematuria | — | — | Partial Correlation (partial-r): 0.0418 [0.0173, 0.0663] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM011458 | PSS008001| East Asian Ancestry| 1,766 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Hematuria | — | — | Partial Correlation (partial-r): 0.028 [-0.019, 0.0748] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM011459 | PSS007785| African Ancestry| 2,389 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Hematuria | — | — | Partial Correlation (partial-r): 0.0395 | sex, age, birth date, deprivation index, 16 PCs | — |
PPM011460 | PSS008889| African Ancestry| 3,775 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Hematuria | — | — | Partial Correlation (partial-r): 0.0273 [-0.0047, 0.0593] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM011456 | PSS008440| Greater Middle Eastern Ancestry| 1,159 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Hematuria | — | — | Partial Correlation (partial-r): -0.0051 [-0.0632, 0.053] | sex, age, birth date, deprivation index, 16 PCs | — |
PPM011457 | PSS008220| South Asian Ancestry| 6,067 individuals |
PGP000263 | Privé F et al. Am J Hum Genet (2022) |
Reported Trait: Hematuria | — | — | Partial Correlation (partial-r): 0.028 [0.0028, 0.0532] | sex, age, birth date, deprivation index, 16 PCs | — |
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 |
---|---|---|---|---|---|---|---|---|
PSS007785 | — | — | 2,389 individuals | — | African American or Afro-Caribbean | Carribean | UKB | — |
PSS009112 | — | — | 4,016 individuals | — | European | Poland (NE Europe) | UKB | — |
PSS008889 | — | — | 3,775 individuals | — | African unspecified | Nigeria (West Africa) | UKB | — |
PSS009338 | — | — | 19,287 individuals | — | European | UK (+ Ireland) | UKB | — |
PSS008666 | — | — | 6,420 individuals | — | European | Italy (South Europe) | UKB | — |
PSS008440 | — | — | 1,159 individuals | — | Greater Middle Eastern (Middle Eastern, North African or Persian) | Iran (Middle East) | UKB | — |
PSS008220 | — | — | 6,067 individuals | — | South Asian | India (South Asia) | UKB | — |
PSS008001 | — | — | 1,766 individuals | — | East Asian | China (East Asia) | UKB | — |