Polygenic Score (PGS) ID: PGS002161

Predicted Trait
Reported Trait Body mass index (BMI)
Mapped Trait(s) body mass index (EFO_0004340)
Additional Trait Information physical measures
Released in PGS Catalog: Jan. 10, 2022
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Score Details

Score Construction
PGS Name portability-ldpred2_log_BMI
Development Method
Name LDpred2 (bigsnpr)
Parameters LDpred2-auto using HapMap3 variants
Variants
Original Genome Build GRCh37
Number of Variants 990,022
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: 40%
African: 30%
East Asian: 10%
Greater Middle Eastern: 10%
South Asian: 10%
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
— 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
PPM012135 PSS009429|
European Ancestry|
19,937 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Body mass index (BMI) — — Partial Correlation (partial-r): 0.3664 [0.3544, 0.3784] sex, age, birth date, deprivation index, 16 PCs —
PPM012136 PSS009203|
European Ancestry|
4,124 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Body mass index (BMI) — — Partial Correlation (partial-r): 0.3698 [0.3431, 0.3959] sex, age, birth date, deprivation index, 16 PCs —
PPM012137 PSS008757|
European Ancestry|
6,622 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Body mass index (BMI) — — Partial Correlation (partial-r): 0.3595 [0.3384, 0.3804] sex, age, birth date, deprivation index, 16 PCs —
PPM012138 PSS008531|
Greater Middle Eastern Ancestry|
1,178 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Body mass index (BMI) — — Partial Correlation (partial-r): 0.2932 [0.2396, 0.345] sex, age, birth date, deprivation index, 16 PCs —
PPM012139 PSS008309|
South Asian Ancestry|
6,145 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Body mass index (BMI) — — Partial Correlation (partial-r): 0.308 [0.2851, 0.3305] sex, age, birth date, deprivation index, 16 PCs —
PPM012141 PSS007873|
African Ancestry|
2,444 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Body mass index (BMI) — — Partial Correlation (partial-r): 0.2104 [0.1721, 0.2482] sex, age, birth date, deprivation index, 16 PCs —
PPM012142 PSS008977|
African Ancestry|
3,859 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Body mass index (BMI) — — Partial Correlation (partial-r): 0.1573 [0.1263, 0.188] sex, age, birth date, deprivation index, 16 PCs —
PPM012140 PSS008086|
East Asian Ancestry|
1,799 individuals
 PGP000263 |
Privé F et al. Am J Hum Genet (2022)
 Reported Trait: Body mass index (BMI) — — Partial Correlation (partial-r): 0.2694 [0.2257, 0.3119] sex, age, birth date, deprivation index, 16 PCs —
PPM020885 PSS011442|
European Ancestry|
564 individuals
 PGP000599 |
Guarischi-Sousa R et al. Circ Genom Precis Med (2023)
|Ext.		 Reported Trait: Raised coronary lesion OR: 1.12 [0.92, 1.35] — — — —
PPM020893 PSS011441|
African Ancestry|
504 individuals
 PGP000599 |
Guarischi-Sousa R et al. Circ Genom Precis Med (2023)
|Ext.		 Reported Trait: Raised coronary lesion OR: 1.1 [0.89, 1.36] — — — —

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
PSS011441 — —
[
  • 165 cases
  • , 339 controls
]
,
82.0 % Male samples
 Mean = 27.5 years African unspecified — PDAY —
PSS011442 — —
[
  • 181 cases
  • , 383 controls
]
,
77.0 % Male samples
 Mean = 26.7 years European — PDAY —
PSS008977 — — 3,859 individuals — African unspecified Nigeria (West Africa) UKB —
PSS008531 — — 1,178 individuals — Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB —
PSS009203 — — 4,124 individuals — European Poland (NE Europe) UKB —
PSS009429 — — 19,937 individuals — European UK (+ Ireland) UKB —
PSS008757 — — 6,622 individuals — European Italy (South Europe) UKB —
PSS008309 — — 6,145 individuals — South Asian India (South Asia) UKB —
PSS008086 — — 1,799 individuals — East Asian China (East Asia) UKB —
PSS007873 — — 2,444 individuals — African American or Afro-Caribbean Carribean UKB —