Polygenic Score (PGS) ID: PGS001270

Predicted Trait
Reported Trait Multiple sclerosis
Mapped Trait(s) multiple sclerosis (MONDO_0005301)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/HC151
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_HC151
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 41
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
—
[
  • 1,257 cases
  • , 268,447 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
PPM008850 PSS004273|
African Ancestry|
6,497 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Multiple sclerosis — AUROC: 0.78603 [0.68344, 0.88862] R²: 0.07124
Incremental AUROC (full-covars): -0.04449
PGS R2 (no covariates): 0.02639
PGS AUROC (no covariates): 0.35945 [0.2174, 0.5015]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008851 PSS004274|
European Ancestry|
24,905 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Multiple sclerosis — AUROC: 0.65766 [0.60651, 0.7088] R²: 0.02306
Incremental AUROC (full-covars): 0.0559
PGS R2 (no covariates): 0.01225
PGS AUROC (no covariates): 0.61627 [0.56233, 0.67022]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008852 PSS004275|
South Asian Ancestry|
7,831 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Multiple sclerosis — AUROC: 0.9739 [0.9358, 1.0] R²: 0.3229
Incremental AUROC (full-covars): 0.01955
PGS R2 (no covariates): 0.02901
PGS AUROC (no covariates): 0.64875 [0.24603, 1.0]		 age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008853 PSS004276|
European Ancestry|
67,425 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Multiple sclerosis — AUROC: 0.69658 [0.66502, 0.72814] R²: 0.04105
Incremental AUROC (full-covars): 0.08355
PGS R2 (no covariates): 0.02904
PGS AUROC (no covariates): 0.65856 [0.62428, 0.69284]		 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
PSS004276 — —
[
  • 277 cases
  • , 67,148 controls
]
 — European white British ancestry UKB Testing cohort (heldout set)
PSS004273 — —
[
  • 11 cases
  • , 6,486 controls
]
 — African unspecified — UKB —
PSS004274 — —
[
  • 107 cases
  • , 24,798 controls
]
 — European non-white British ancestry UKB —
PSS004275 — —
[
  • 4 cases
  • , 7,827 controls
]
 — South Asian — UKB —