Predicted Trait | |
Reported Trait | Rheumatoid arthritis |
Mapped Trait(s) | rheumatoid arthritis (EFO_0000685) |
Additional Trait Information | seropositive RA |
Score Construction | |
PGS Name | lassosum.auto.GCST90013534.RA |
Development Method | |
Name | lassosum.auto |
Parameters | s0.2,lambda0.00335981828628378 |
Variants | |
Original Genome Build | GRCh38 |
Number of Variants | 27,045 |
Effect Weight Type | beta |
PGS Source | |
PGS Catalog Publication (PGP) ID | PGP000517 |
Citation (link to publication) | Monti M R et al. medRxiv (2023) Preprint |
Study Identifiers | Sample Numbers | Sample Ancestry | Cohort(s) |
---|---|---|---|
GWAS Catalog: GCST90013534 Europe PMC: 33310728 |
58,284 individuals | European | NR |
GWAS Catalog: GCST90013534 Europe PMC: 33310728 |
253,008 individuals | East Asian | NR |
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 |
---|---|---|---|---|---|---|---|---|
— | 820 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 |
---|---|---|---|---|---|---|---|---|
PPM020050 | PSS011222| European Ancestry| 199,274 individuals |
PGP000517 | Monti M R et al. medRxiv (2023) |Pre |
Reported Trait: Seropositive RA | OR: 1.32987 β: 0.28508 |
AUROC: 0.59 | — | 0 | beta = log(or)/sd_pgs |
PPM020051 | PSS011233| European Ancestry| 388,890 individuals |
PGP000517 | Monti M R et al. medRxiv (2023) |Pre |
Reported Trait: Seropositive RA | OR: 1.49732 β: 0.40368 |
AUROC: 0.61 | — | 0 | beta = log(or)/sd_pgs |
PPM020052 | PSS011246| South Asian Ancestry| 44,057 individuals |
PGP000517 | Monti M R et al. medRxiv (2023) |Pre |
Reported Trait: Seropositive RA | OR: 1.28607 β: 0.25159 |
AUROC: 0.6 | — | 0 | beta = log(or)/sd_pgs |
PPM020053 | PSS011262| European Ancestry| 66,865 individuals |
PGP000517 | Monti M R et al. medRxiv (2023) |Pre |
Reported Trait: Seropositive RA | OR: 1.18691 β: 0.17135 |
AUROC: 0.56 | — | 0 | beta = log(or)/sd_pgs |
PPM020054 | PSS011275| European Ancestry| 90,274 individuals |
PGP000517 | Monti M R et al. medRxiv (2023) |Pre |
Reported Trait: Seropositive RA | OR: 1.59047 β: 0.46403 |
AUROC: 0.67 | — | 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 |
---|---|---|---|---|---|---|---|---|
PSS011275 | — | — | [
|
— | European | — | UKB | — |
PSS011246 | — | — | [
|
— | South Asian | — | G&H | — |
PSS011222 | — | — | [
|
— | European | — | EB | — |
PSS011262 | — | — | [
|
— | European | — | HUNT | — |
PSS011233 | RHEUMA_SEROPOS_OTH, ICD10: M05[8-9], ICD9: 7140A | — | [
|
— | European | — | FinnGen | — |