PGS Catalog - PGS002033 / Overweight, obesity and other hyperalimentation (Polygenic Score)

Polygenic Score (PGS) ID: PGS002033

Predicted Trait
Reported Trait	Overweight, obesity and other hyperalimentation
Mapped Trait(s)	overnutrition (MONDO_0003916) overweight body mass index status (EFO_0005935) obesity (EFO_0001073)
Additional Trait Information	endocrine/metabolic

Released in PGS Catalog: Jan. 10, 2022

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Score Details

Score Construction
PGS Name	portability-ldpred2_278
Development Method
Name	LDpred2 (bigsnpr)
Parameters	LDpred2-auto using HapMap3 variants
Variants
Original Genome Build	GRCh37
Number of Variants	846,292
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: 37.5% African: 25% East Asian: 12.5% Greater Middle Eastern: 12.5% South Asian: 12.5% 8 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
—	391,124 individuals	European	UKB	—	—	—	UK (+ Ireland)	—

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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
PPM011135	PSS009295\| European Ancestry\| 20,000 individuals	PGP000263 \| Privé F et al. Am J Hum Genet (2022)	Reported Trait: Overweight, obesity and other hyperalimentation	—	—	Partial Correlation (partial-r): 0.0789 [0.0651, 0.0927]	sex, age, birth date, deprivation index, 16 PCs	—
PPM011136	PSS009069\| European Ancestry\| 4,136 individuals	PGP000263 \| Privé F et al. Am J Hum Genet (2022)	Reported Trait: Overweight, obesity and other hyperalimentation	—	—	Partial Correlation (partial-r): 0.0523 [0.0218, 0.0827]	sex, age, birth date, deprivation index, 16 PCs	—
PPM011137	PSS008623\| European Ancestry\| 6,660 individuals	PGP000263 \| Privé F et al. Am J Hum Genet (2022)	Reported Trait: Overweight, obesity and other hyperalimentation	—	—	Partial Correlation (partial-r): 0.0824 [0.0585, 0.1062]	sex, age, birth date, deprivation index, 16 PCs	—
PPM011138	PSS008398\| Greater Middle Eastern Ancestry\| 1,200 individuals	PGP000263 \| Privé F et al. Am J Hum Genet (2022)	Reported Trait: Overweight, obesity and other hyperalimentation	—	—	Partial Correlation (partial-r): 0.0801 [0.0232, 0.1366]	sex, age, birth date, deprivation index, 16 PCs	—
PPM011139	PSS008177\| South Asian Ancestry\| 6,331 individuals	PGP000263 \| Privé F et al. Am J Hum Genet (2022)	Reported Trait: Overweight, obesity and other hyperalimentation	—	—	Partial Correlation (partial-r): 0.0502 [0.0255, 0.0747]	sex, age, birth date, deprivation index, 16 PCs	—
PPM011140	PSS007963\| East Asian Ancestry\| 1,810 individuals	PGP000263 \| Privé F et al. Am J Hum Genet (2022)	Reported Trait: Overweight, obesity and other hyperalimentation	—	—	Partial Correlation (partial-r): 0.0109 [-0.0354, 0.0572]	sex, age, birth date, deprivation index, 16 PCs	—
PPM011141	PSS007744\| African Ancestry\| 2,484 individuals	PGP000263 \| Privé F et al. Am J Hum Genet (2022)	Reported Trait: Overweight, obesity and other hyperalimentation	—	—	Partial Correlation (partial-r): 0.0265 [-0.013, 0.0659]	sex, age, birth date, deprivation index, 16 PCs	—
PPM011142	PSS008848\| African Ancestry\| 3,924 individuals	PGP000263 \| Privé F et al. Am J Hum Genet (2022)	Reported Trait: Overweight, obesity and other hyperalimentation	—	—	Partial Correlation (partial-r): 0.0516 [0.0203, 0.0829]	sex, age, birth date, deprivation index, 16 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
PSS007744	—	—	2,484 individuals	—	African American or Afro-Caribbean	Carribean	UKB	—
PSS007963	—	—	1,810 individuals	—	East Asian	China (East Asia)	UKB	—
PSS008177	—	—	6,331 individuals	—	South Asian	India (South Asia)	UKB	—
PSS008398	—	—	1,200 individuals	—	Greater Middle Eastern (Middle Eastern, North African or Persian)	Iran (Middle East)	UKB	—
PSS008623	—	—	6,660 individuals	—	European	Italy (South Europe)	UKB	—
PSS008848	—	—	3,924 individuals	—	African unspecified	Nigeria (West Africa)	UKB	—
PSS009069	—	—	4,136 individuals	—	European	Poland (NE Europe)	UKB	—
PSS009295	—	—	20,000 individuals	—	European	UK (+ Ireland)	UKB	—

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