Polygenic Score (PGS) ID: PGS001619

Predicted Trait
Reported Trait Volume of grey matter in Vermis VIIIb Cerebellum
Mapped Trait(s)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/INI25913
Released in PGS Catalog: Nov. 25, 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_INI25913
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 1,916
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%
22,320 individuals (100%)
PGS Evaluation
European: 40%
African: 20%
East Asian: 20%
South Asian: 20%
5 Sample Sets

Development Samples

Score Development/Training
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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
22,320 individualsEuropeanUKBwhite British ancestryTraining + validation cohort (train_val)
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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.

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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
PPM006990PSS006836|
African Ancestry|
200 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Vol. of grey matter in Vermis VIIIb Cerebellum: 0.02549 [0.01793, 0.03305]
Incremental R2 (full-covars): -0.01502
PGS R2 (no covariates): 0.00026 [-0.00052, 0.00104]
age, sex, UKB array type, Genotype PCs
PPM006991PSS006837|
East Asian Ancestry|
113 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Vol. of grey matter in Vermis VIIIb Cerebellum: 0.16952 [0.13711, 0.20192]
Incremental R2 (full-covars): 0.02831
PGS R2 (no covariates): 0.03986 [0.02169, 0.05802]
age, sex, UKB array type, Genotype PCs
PPM006992PSS006838|
European Ancestry|
1,739 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Vol. of grey matter in Vermis VIIIb Cerebellum: 0.10702 [0.09977, 0.11428]
Incremental R2 (full-covars): 0.02623
PGS R2 (no covariates): 0.0274 [0.0234, 0.03139]
age, sex, UKB array type, Genotype PCs
PPM006993PSS006839|
South Asian Ancestry|
329 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Vol. of grey matter in Vermis VIIIb Cerebellum: 0.10293 [0.09019, 0.11567]
Incremental R2 (full-covars): 0.00146
PGS R2 (no covariates): 0.00347 [0.00087, 0.00606]
age, sex, UKB array type, Genotype PCs
PPM006994PSS006840|
European Ancestry|
5,443 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Vol. of grey matter in Vermis VIIIb Cerebellum: 0.10046 [0.09615, 0.10476]
Incremental R2 (full-covars): 0.0372
PGS R2 (no covariates): 0.03883 [0.03597, 0.04169]
age, sex, UKB array type, Genotype PCs
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Evaluated Samples

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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
PSS006836200 individualsAfrican unspecifiedUKB
PSS006837113 individualsEast AsianUKB
PSS0068381,739 individualsEuropeannon-white British ancestryUKB
PSS006839329 individualsSouth AsianUKB
PSS0068405,443 individualsEuropeanwhite British ancestryUKBTesting cohort (heldout set)
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