Trait: obesity

Experimental Factor Ontology (EFO) Information
Identifier EFO_0001073
Description A disorder involving an excessive amount of body fat.
Trait category
Metabolic disorder
Synonyms 12 synonyms
  • Adiposis
  • Adiposity
  • Obese
  • Obese (finding)
  • Obesity (disorder)
  • Obesity NOS
  • Obesity [Ambiguous]
  • Obesity, unspecified
  • Overweight and obesity
  • obesity
  • obesity disease
  • obesity disorder
Mapped terms 17 mapped terms
  • DOID:9970
  • HP:0001513
  • ICD10:E66
  • ICD9:278.0
  • ICD9:278.00
  • MONDO:0011122
  • MeSH:D009765
  • MedDRA:10029883
  • MedDRA:10029885
  • NCIT:C3283
  • NCIt:C3283
  • NIFSTD:nlx_dys_20090302
  • OMIM:601665
  • Orphanet:521399
  • SCTID:414916001
  • SNOMEDCT:414916001
  • UMLS:C0028754

Associated Polygenic Score(s)

Filter PGS by Participant Ancestry
Individuals included in:
G - Source of Variant Associations (GWAS)
D - Score Development/Training
E - PGS Evaluation
List of ancestries includes:
Display options:
Ancestry legend
Multi-ancestry (including European)
Multi-ancestry (excluding European)
African
East Asian
South Asian
Additional Asian Ancestries
European
Greater Middle Eastern
Hispanic or Latin American
Additional Diverse Ancestries
Not Reported
Polygenic Score ID & Name PGS Publication ID (PGP) Reported Trait Mapped Trait(s) (Ontology) Number of Variants Ancestry distribution Scoring File (FTP Link)
PGS001298
(GBE_HC689)
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Obesity (time-to-event) obesity 9,227
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001298/ScoringFiles/PGS001298.txt.gz
PGS001825
(portability-PLR_278)
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Overweight, obesity and other hyperalimentation obesity,
overweight body mass index status,
overnutrition
13,009
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001825/ScoringFiles/PGS001825.txt.gz
PGS002033
(portability-ldpred2_278)
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Overweight, obesity and other hyperalimentation obesity,
overweight body mass index status,
overnutrition
846,292
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002033/ScoringFiles/PGS002033.txt.gz

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)
Evaluated Score 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
PPM008987 PGS001298
(GBE_HC689)
PSS004590|
African Ancestry|
6,497 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: TTE obesity AUROC: 0.631 [0.60757, 0.65443] : 0.03591
Incremental AUROC (full-covars): -0.00374
PGS R2 (no covariates): 0.00346
PGS AUROC (no covariates): 0.54117 [0.51549, 0.56685]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008988 PGS001298
(GBE_HC689)
PSS004591|
East Asian Ancestry|
1,704 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: TTE obesity AUROC: 0.65328 [0.53612, 0.77044] : 0.04232
Incremental AUROC (full-covars): -0.00574
PGS R2 (no covariates): 0.00287
PGS AUROC (no covariates): 0.54699 [0.43971, 0.65426]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008989 PGS001298
(GBE_HC689)
PSS004592|
European Ancestry|
24,905 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: TTE obesity AUROC: 0.59854 [0.58297, 0.61411] : 0.01902
Incremental AUROC (full-covars): 0.02082
PGS R2 (no covariates): 0.00911
PGS AUROC (no covariates): 0.56858 [0.5529, 0.58426]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008990 PGS001298
(GBE_HC689)
PSS004593|
South Asian Ancestry|
7,831 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: TTE obesity AUROC: 0.61415 [0.59079, 0.6375] : 0.02737
Incremental AUROC (full-covars): 0.00377
PGS R2 (no covariates): 0.00603
PGS AUROC (no covariates): 0.55658 [0.53218, 0.58097]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM008991 PGS001298
(GBE_HC689)
PSS004594|
European Ancestry|
67,425 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: TTE obesity AUROC: 0.59555 [0.58697, 0.60413] : 0.01814
Incremental AUROC (full-covars): 0.03355
PGS R2 (no covariates): 0.01146
PGS AUROC (no covariates): 0.57573 [0.56713, 0.58434]
age, sex, UKB array type, Genotype PCs Full Model & PGS R2 is estimated using Nagelkerke's method
PPM009497 PGS001825
(portability-PLR_278)
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): 0.0547 [0.0409, 0.0686] sex, age, birth date, deprivation index, 16 PCs
PPM009499 PGS001825
(portability-PLR_278)
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): 0.0516 [0.0276, 0.0756] sex, age, birth date, deprivation index, 16 PCs
PPM009500 PGS001825
(portability-PLR_278)
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): 0.0493 [-0.0078, 0.106] sex, age, birth date, deprivation index, 16 PCs
PPM009501 PGS001825
(portability-PLR_278)
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): 0.0334 [0.0087, 0.058] sex, age, birth date, deprivation index, 16 PCs
PPM009502 PGS001825
(portability-PLR_278)
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): -0.0049 [-0.0513, 0.0414] sex, age, birth date, deprivation index, 16 PCs
PPM009503 PGS001825
(portability-PLR_278)
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): 0.0323 [-0.0072, 0.0717] sex, age, birth date, deprivation index, 16 PCs
PPM009504 PGS001825
(portability-PLR_278)
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): 0.0208 [-0.0105, 0.0522] sex, age, birth date, deprivation index, 16 PCs
PPM009498 PGS001825
(portability-PLR_278)
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): 0.0453 [0.0148, 0.0758] sex, age, birth date, deprivation index, 16 PCs
PPM011135 PGS002033
(portability-ldpred2_278)
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
PPM011137 PGS002033
(portability-ldpred2_278)
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 PGS002033
(portability-ldpred2_278)
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 PGS002033
(portability-ldpred2_278)
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 PGS002033
(portability-ldpred2_278)
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 PGS002033
(portability-ldpred2_278)
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 PGS002033
(portability-ldpred2_278)
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
PPM011136 PGS002033
(portability-ldpred2_278)
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

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
PSS009069 4,136 individuals European Poland (NE Europe) UKB
PSS008398 1,200 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB
PSS009295 20,000 individuals European UK (+ Ireland) UKB
PSS008623 6,660 individuals European Italy (South Europe) UKB
PSS008177 6,331 individuals South Asian India (South Asia) UKB
PSS008848 3,924 individuals African unspecified Nigeria (West Africa) UKB
PSS004590
[
  • 536 cases
  • , 5,961 controls
]
African unspecified UKB
PSS004591
[
  • 27 cases
  • , 1,677 controls
]
East Asian UKB
PSS004592
[
  • 1,355 cases
  • , 23,550 controls
]
European non-white British ancestry UKB
PSS004593
[
  • 564 cases
  • , 7,267 controls
]
South Asian UKB
PSS004594
[
  • 4,477 cases
  • , 62,948 controls
]
European white British ancestry UKB Testing cohort (heldout set)
PSS007963 1,810 individuals East Asian China (East Asia) UKB
PSS007744 2,484 individuals African American or Afro-Caribbean Carribean UKB