Polygenic Score (PGS) ID: PGS000691

Predicted Trait
Reported Trait Non-albumin protein [g/L]
Mapped Trait(s) level of serum globulin type protein (OBA_2045206)
Released in PGS Catalog: Feb. 3, 2021
Download Score FTP directory
Terms and Licenses
Creative Commons Attribution 4.0 International (CC BY 4.0)

Score Details

Score Construction
PGS Name snpnet.Non_albumin_protein
Development Method
Name snpnet
Parameters 1,080,968 variants as input (directly genotyped variants, imputed HLA allelotypes, and CNVs)
Variants
Original Genome Build hg19
Number of Variants 18,670
Effect Weight Type beta
PGS Source
PGS Catalog Publication (PGP) ID PGP000128
Citation (link to publication) Sinnott-Armstrong N et al. Nat Genet (2021)
Ancestry Distribution
Score Development/Training
European: 100%
255,256 individuals (100%)
PGS Evaluation
European: 40%
African: 20%
East Asian: 20%
South Asian: 20%
10 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
223,327 individuals European
(British)		 UKB — — — — Training
31,929 individuals European
(British)		 UKB — — — — Validation

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
PPM001419 PSS000729|
African Ancestry|
5,573 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Non-albumin protein [g/L] — — R²: 0.07146
Spearman's ρ: 0.16		 Age, sex, PCs(1-40) —
PPM001454 PSS000730|
East Asian Ancestry|
984 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Non-albumin protein [g/L] — — R²: 0.0886
Spearman's ρ: 0.216		 Age, sex, PCs(1-40) —
PPM001489 PSS000731|
European Ancestry|
21,516 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Non-albumin protein [g/L] — — R²: 0.12839
Spearman's ρ: 0.31		 Age, sex, PCs(1-40) —
PPM001524 PSS000732|
South Asian Ancestry|
6,687 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Non-albumin protein [g/L] — — R²: 0.15158
Spearman's ρ: 0.292		 Age, sex, PCs(1-40) —
PPM001559 PSS000733|
European Ancestry|
58,196 individuals
 PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
 Reported Trait: Non-albumin protein [g/L] — — R²: 0.12321
Spearman's ρ: 0.311		 Age, sex, PCs(1-40) —
PPM007380 PSS006916|
African Ancestry|
5,573 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Non-albumin protein — — R²: 0.02946 [0.02136, 0.03756]
Incremental R2 (full-covars): 0.02412
PGS R2 (no covariates): 0.02397 [0.01663, 0.03132]		 age, sex, UKB array type, Genotype PCs —
PPM007381 PSS006917|
East Asian Ancestry|
1,436 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Non-albumin protein — — R²: 0.09152 [0.06547, 0.11756]
Incremental R2 (full-covars): 0.05716
PGS R2 (no covariates): 0.06672 [0.04387, 0.08956]		 age, sex, UKB array type, Genotype PCs —
PPM007382 PSS006918|
European Ancestry|
21,514 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Non-albumin protein — — R²: 0.09985 [0.09278, 0.10691]
Incremental R2 (full-covars): 0.09891
PGS R2 (no covariates): 0.09939 [0.09234, 0.10644]		 age, sex, UKB array type, Genotype PCs —
PPM007383 PSS006919|
South Asian Ancestry|
6,643 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Non-albumin protein — — R²: 0.09351 [0.08124, 0.10578]
Incremental R2 (full-covars): 0.08375
PGS R2 (no covariates): 0.08889 [0.07686, 0.10091]		 age, sex, UKB array type, Genotype PCs —
PPM007384 PSS006920|
European Ancestry|
58,191 individuals
 PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.		 Reported Trait: Non-albumin protein — — R²: 0.10006 [0.09577, 0.10436]
Incremental R2 (full-covars): 0.10006
PGS R2 (no covariates): 0.10018 [0.09588, 0.10448]		 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
PSS006916 — — 5,573 individuals — African unspecified — UKB —
PSS006917 — — 1,436 individuals — East Asian — UKB —
PSS006918 — — 21,514 individuals — European non-white British ancestry UKB —
PSS006919 — — 6,643 individuals — South Asian — UKB —
PSS006920 — — 58,191 individuals — European white British ancestry UKB Testing cohort (heldout set)
PSS000729 — — 5,573 individuals — African unspecified — UKB —
PSS000730 — — 984 individuals — East Asian — UKB —
PSS000731 — — 21,516 individuals — European Non-British White UKB —
PSS000732 — — 6,687 individuals — South Asian — UKB —
PSS000733 — — 58,196 individuals — European
(British)		 — UKB —