Polygenic Score (PGS) ID: PGS002038

Predicted Trait
Reported Trait Multiple sclerosis
Mapped Trait(s) multiple sclerosis (MONDO_0005301)
Additional Trait Information neurological
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-ldpred2_335
Development Method
Name LDpred2 (bigsnpr)
Parameters LDpred2-auto using HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 129,077
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)
Ancestry Distribution
Score Development/Training
European: 100%
391,124 individuals (100%)
PGS Evaluation
European: 42.9%
African: 28.6%
Greater Middle Eastern: 14.3%
South Asian: 14.3%
7 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
— 391,124 individuals European UKB — — — UK (+ Ireland) —

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
PPM011172 PSS009075|
European Ancestry|
4,011 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Multiple sclerosis — — Partial Correlation (partial-r): 0.0083 [-0.0228, 0.0393] sex, age, birth date, deprivation index, 16 PCs —
PPM011173 PSS008629|
European Ancestry|
6,463 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Multiple sclerosis — — Partial Correlation (partial-r): 0.0447 [0.0203, 0.069] sex, age, birth date, deprivation index, 16 PCs —
PPM011174 PSS008403|
Greater Middle Eastern Ancestry|
1,164 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Multiple sclerosis — — Partial Correlation (partial-r): 0.0296 [-0.0284, 0.0874] sex, age, birth date, deprivation index, 16 PCs —
PPM011175 PSS008183|
South Asian Ancestry|
6,094 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Multiple sclerosis — — Partial Correlation (partial-r): 0.0149 [-0.0103, 0.04] sex, age, birth date, deprivation index, 16 PCs —
PPM011176 PSS007749|
African Ancestry|
2,390 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Multiple sclerosis — — Partial Correlation (partial-r): 0.006 [-0.0343, 0.0463] sex, age, birth date, deprivation index, 16 PCs —
PPM011177 PSS008853|
African Ancestry|
3,790 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Multiple sclerosis — — Partial Correlation (partial-r): -0.0243 [-0.0561, 0.0077] sex, age, birth date, deprivation index, 16 PCs —
PPM011171 PSS009301|
European Ancestry|
19,299 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Multiple sclerosis — — Partial Correlation (partial-r): 0.0396 [0.0255, 0.0536] sex, age, birth date, deprivation index, 16 PCs —

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
PSS007749 — — 2,390 individuals — African American or Afro-Caribbean Carribean UKB —
PSS008403 — — 1,164 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS009075 — — 4,011 individuals — European Poland (NE Europe) UKB —
PSS008629 — — 6,463 individuals — European Italy (South Europe) UKB —
PSS008853 — — 3,790 individuals — African unspecified Nigeria (West Africa) UKB —
PSS008183 — — 6,094 individuals — South Asian India (South Asia) UKB —
PSS009301 — — 19,299 individuals — European UK (+ Ireland) UKB —