Predicted Trait | |
Reported Trait | Chronic kidney disease (CKD) |
Mapped Trait(s) | chronic kidney disease (EFO_0003884) |
Score Construction | |
PGS Name | lassosum.auto.GCST008059.CKD |
Development Method | |
Name | lassosum.auto |
Parameters | s0.2,lambda0.00335981828628378 |
Variants | |
Original Genome Build | GRCh38 |
Number of Variants | 15,373 |
Effect Weight Type | beta |
PGS Source | |
PGS Catalog Publication (PGP) ID | PGP000517 |
Citation (link to publication) | Monti M R et al. medRxiv (2023) Preprint |
Ancestry Distribution | |
Score Development/Training | European: 100% 13,496 individuals (100%) |
PGS Evaluation | European: 66.7% South Asian: 33.3% 6 Sample Sets |
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 |
---|---|---|---|---|---|---|---|---|
— | 13,496 individuals | European | UKB | — | — | — | — | — |
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 |
---|---|---|---|---|---|---|---|---|
PPM019791 | PSS011216| European Ancestry| 199,274 individuals |
PGP000517 | Monti M R et al. medRxiv (2023) |Pre |
Reported Trait: Chronic kidney disease or dialysis | OR: 1.21322 β: 0.19327 |
AUROC: 0.55 | — | 0 | beta = log(or)/sd_pgs |
PPM019792 | PSS011228| European Ancestry| 383,843 individuals |
PGP000517 | Monti M R et al. medRxiv (2023) |Pre |
Reported Trait: Chronic kidney disease or dialysis | OR: 1.1667 β: 0.15418 |
AUROC: 0.54 | — | 0 | beta = log(or)/sd_pgs |
PPM019794 | PSS011239| South Asian Ancestry| 44,057 individuals |
PGP000517 | Monti M R et al. medRxiv (2023) |Pre |
Reported Trait: Chronic kidney disease or dialysis | OR: 1.14563 β: 0.13596 |
AUROC: 0.54 | — | 0 | beta = log(or)/sd_pgs |
PPM019796 | PSS011255| European Ancestry| 66,865 individuals |
PGP000517 | Monti M R et al. medRxiv (2023) |Pre |
Reported Trait: Chronic kidney disease or dialysis | OR: 1.17435 β: 0.16072 |
AUROC: 0.55 | — | 0 | beta = log(or)/sd_pgs |
PPM019798 | PSS011283| South Asian Ancestry| 9,326 individuals |
PGP000517 | Monti M R et al. medRxiv (2023) |Pre |
Reported Trait: Chronic kidney disease or dialysis | OR: 1.17987 β: 0.1654 |
AUROC: 0.55 | — | 0 | beta = log(or)/sd_pgs |
PPM019800 | PSS011269| European Ancestry| 90,274 individuals |
PGP000517 | Monti M R et al. medRxiv (2023) |Pre |
Reported Trait: Chronic kidney disease or dialysis | OR: 1.32743 β: 0.28325 |
AUROC: 0.58 | — | 0 | beta = log(or)/sd_pgs |
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 |
---|---|---|---|---|---|---|---|---|
PSS011239 | — | — | [
|
— | South Asian | — | G&H | — |
PSS011216 | — | — | [
|
— | European | — | EB | — |
PSS011283 | — | — | [
|
— | South Asian | — | UKB | — |
PSS011255 | — | — | [
|
— | European | — | HUNT | — |
PSS011228 | N14_CHRONKIDNEYDIS, ICD10: N18, ICD9: 585, include dialysis (ICD10 Z992|Y841) | — | [
|
— | European | — | FinnGen | — |
PSS011269 | — | — | [
|
— | European | — | UKB | — |