Polygenic Score (PGS) ID: PGS001271

Predicted Trait
Reported Trait Multiple sclerosis (time-to-event)
Mapped Trait(s) multiple sclerosis (MONDO_0005301)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/HC810
Released in PGS Catalog: Oct. 21, 2021
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Terms and Licenses
PGS obtained from the Catalog should be cited appropriately, and used in accordance with any licensing restrictions set by the authors. See EBI Terms of Use (https://www.ebi.ac.uk/about/terms-of-use/) for additional details.

Score Details

Score Construction
PGS Name GBE_HC810
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 36
Effect Weight Type NR
PGS Source
PGS Catalog Publication (PGP) ID PGP000244
Citation (link to publication) Tanigawa Y et al. PLoS Genet (2022)
Ancestry Distribution
Score Development/Training
European: 100%
269,704 individuals (100%)
PGS Evaluation
European: 50%
African: 25%
South Asian: 25%
4 Sample Sets

Development Samples

Score Development/Training
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
—
[
  • 1,327 cases
  • , 268,377 controls
]
 European UKB — — — white British ancestry —

Performance Metrics

Disclaimer: The performance metrics are displayed as reported by the source studies. It is important to note that metrics are not necessarily comparable with each other. For example, metrics depend on the sample characteristics (described by the PGS Catalog Sample Set [PSS] ID), phenotyping, and statistical modelling. Please refer to the source publication for additional guidance on performance.

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
PPM008854 PSS004637|
African Ancestry|
6,497 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: TTE multiple sclerosis — AUROC: 0.8033 [0.6935, 0.91311] PGS R2 (no covariates): 0.01095
R²: 0.10788
Incremental AUROC (full-covars): -0.03509
PGS AUROC (no covariates): 0.39974 [0.23738, 0.56211]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008855 PSS004639|
European Ancestry|
24,905 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: TTE multiple sclerosis — AUROC: 0.65561 [0.60622, 0.705] R²: 0.02347
Incremental AUROC (full-covars): 0.05454
PGS R2 (no covariates): 0.01258
PGS AUROC (no covariates): 0.61601 [0.56326, 0.66875]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008856 PSS004640|
South Asian Ancestry|
7,831 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: TTE multiple sclerosis — AUROC: 0.97595 [0.94159, 1.0] R²: 0.33555
Incremental AUROC (full-covars): 0.01648
PGS R2 (no covariates): 0.01091
PGS AUROC (no covariates): 0.55629 [0.19512, 0.91745]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008857 PSS004641|
European Ancestry|
67,425 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: TTE multiple sclerosis — AUROC: 0.6895 [0.65926, 0.71974] R²: 0.03906
Incremental AUROC (full-covars): 0.07145
PGS R2 (no covariates): 0.02562
PGS AUROC (no covariates): 0.64688 [0.61364, 0.68013]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method

Evaluated Samples

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
PSS004637 — —
[
  • 12 cases
  • , 6,485 controls
]
 — African unspecified — UKB —
PSS004639 — —
[
  • 115 cases
  • , 24,790 controls
]
 — European non-white British ancestry UKB —
PSS004640 — —
[
  • 5 cases
  • , 7,826 controls
]
 — South Asian — UKB —
PSS004641 — —
[
  • 302 cases
  • , 67,123 controls
]
 — European white British ancestry UKB Testing cohort (heldout set)