Polygenic Score (PGS) ID: PGS001533

Predicted Trait
Reported Trait Tinnitus severity
Mapped Trait(s) Tinnitus (HP_0000360)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/QT_FC1004803
Released in PGS Catalog: Nov. 25, 2021
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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_QT_FC1004803
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 343
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%
110,614 individuals (100%)
PGS Evaluation
European: 40%
African: 20%
East Asian: 20%
South Asian: 20%
5 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
— 110,614 individuals European UKB — — — white British ancestry Training + validation cohort (train_val)

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
PPM007260 PSS007611|
African Ancestry|
3,651 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Tinnitus severity — — R²: 0.00963 [0.00491, 0.01435]
Incremental R2 (full-covars): 0.00027
PGS R2 (no covariates): 0.00038 [-0.00057, 0.00132]		 age, sex, UKB array type, Genotype PCs —
PPM007261 PSS007612|
East Asian Ancestry|
770 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Tinnitus severity — — R²: 0.04047 [0.02218, 0.05877]
Incremental R2 (full-covars): 0.0031
PGS R2 (no covariates): 0.00478 [-0.00174, 0.01131]		 age, sex, UKB array type, Genotype PCs —
PPM007262 PSS007613|
European Ancestry|
11,174 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Tinnitus severity — — R²: 0.01906 [0.0157, 0.02243]
Incremental R2 (full-covars): 0.00143
PGS R2 (no covariates): 0.00167 [0.00066, 0.00268]		 age, sex, UKB array type, Genotype PCs —
PPM007263 PSS007614|
South Asian Ancestry|
4,731 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Tinnitus severity — — R²: 0.02195 [0.01553, 0.02837]
Incremental R2 (full-covars): 0.00113
PGS R2 (no covariates): 0.00165 [-0.00014, 0.00345]		 age, sex, UKB array type, Genotype PCs —
PPM007264 PSS007615|
European Ancestry|
27,484 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Tinnitus severity — — R²: 0.01575 [0.01388, 0.01761]
Incremental R2 (full-covars): 0.0008
PGS R2 (no covariates): 0.00073 [0.00032, 0.00114]		 age, sex, UKB array type, Genotype 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
PSS007612 — — 770 individuals — East Asian — UKB —
PSS007613 — — 11,174 individuals — European non-white British ancestry UKB —
PSS007614 — — 4,731 individuals — South Asian — UKB —
PSS007615 — — 27,484 individuals — European white British ancestry UKB Testing cohort (heldout set)
PSS007611 — — 3,651 individuals — African unspecified — UKB —