Polygenic Score (PGS) ID: PGS001398

Predicted Trait
Reported Trait Friendship satisfaction
Mapped Trait(s) friendship satisfaction measurement (EFO_0009725)
Additional Trait Information https://biobankengine.stanford.edu/RIVAS_HG19/snpnet/QT_FC1004570
Released in PGS Catalog: Nov. 25, 2021
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Score Details

Score Construction
PGS Name GBE_QT_FC1004570
Development Method
Name snpnet
Parameters NR
Variants
Original Genome Build GRCh37
Number of Variants 659
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%
105,497 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
— 105,497 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
PPM007255 PSS007606|
African Ancestry|
3,707 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Friendships satisfaction — — R²: 0.00439 [0.00119, 0.0076]
Incremental R2 (full-covars): -0.00158
PGS R2 (no covariates): 0.00016 [-0.00046, 0.00079]		 age, sex, UKB array type, Genotype PCs —
PPM007256 PSS007607|
East Asian Ancestry|
782 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Friendships satisfaction — — R²: 0.01093 [0.00113, 0.02073]
Incremental R2 (full-covars): -0.00284
PGS R2 (no covariates): 0.00036 [-0.00143, 0.00214]		 age, sex, UKB array type, Genotype PCs —
PPM007257 PSS007608|
European Ancestry|
10,751 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Friendships satisfaction — — R²: 0.01912 [0.01575, 0.02249]
Incremental R2 (full-covars): -0.00089
PGS R2 (no covariates): 0.00011 [-0.00015, 0.00038]		 age, sex, UKB array type, Genotype PCs —
PPM007258 PSS007609|
South Asian Ancestry|
4,922 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Friendships satisfaction — — R²: 0.00983 [0.00548, 0.01418]
Incremental R2 (full-covars): -0.00092
PGS R2 (no covariates): 9e-05 [-0.00033, 0.00052]		 age, sex, UKB array type, Genotype PCs —
PPM007259 PSS007610|
European Ancestry|
26,257 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
 Reported Trait: Friendships satisfaction — — R²: 0.01886 [0.01682, 0.02089]
Incremental R2 (full-covars): 0.00139
PGS R2 (no covariates): 0.00143 [0.00086, 0.002]		 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
PSS007606 — — 3,707 individuals — African unspecified — UKB —
PSS007607 — — 782 individuals — East Asian — UKB —
PSS007608 — — 10,751 individuals — European non-white British ancestry UKB —
PSS007609 — — 4,922 individuals — South Asian — UKB —
PSS007610 — — 26,257 individuals — European white British ancestry UKB Testing cohort (heldout set)