PGS Publication: PGP000363

Publication Information (EuropePMC)
Title Genetic risk score enhances the risk prediction of severe obesity in adult survivors of childhood cancer.
PubMed ID 35879615(Europe PMC)
doi 10.1038/s41591-022-01902-3
Publication Date July 25, 2022
Journal Nat Med
Author(s) Sapkota Y, Qiu W, Dixon SB, Wilson CL, Wang Z, Zhang J, Leisenring W, Chow EJ, Bhatia S, Armstrong GT, Robison LL, Hudson MM, Delaney A, Yasui Y.
Released in PGS Catalog: Sept. 8, 2022

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:
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Multi-ancestry (excluding European)
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East Asian
South Asian
Additional Asian Ancestries
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Greater Middle Eastern
Hispanic or Latin American
Additional Diverse Ancestries
Not Reported

PGS Developed By This Publication

Polygenic Score ID & Name PGS Publication ID (PGP) Reported Trait Mapped Trait(s) (Ontology) Number of Variants Ancestry distribution
GWAS
Dev
Eval
 Scoring File (FTP Link)
PGS002751
(GRSrare)
 PGP000363 |
Sapkota Y et al. Nat Med (2022)
 Body mass index (BMI) body mass index 14
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002751/ScoringFiles/PGS002751.txt.gz

External PGS Evaluated By This Publication

Polygenic Score ID & Name PGS Publication ID (PGP) Reported Trait Mapped Trait(s) (Ontology) Number of Variants Ancestry distribution
GWAS
Dev
Eval
 Scoring File (FTP Link)
PGS000027
(GPS_BMI)
 PGP000017 |
Khera AV et al. Cell (2019)
 Body mass index (BMI) body mass index 2,100,302
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000027/ScoringFiles/PGS000027.txt.gz - Check Terms/Licenses

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
PPM014943 PGS002751
(GRSrare)
 PSS009938|
European Ancestry|
6,064 individuals
 PGP000363 |
Sapkota Y et al. Nat Med (2022)
 Reported Trait: Overweight — — Odds Ratio (OR, 10th vs. 1st decile): 1.78 [1.14, 2.79] Cubic splines (five knots at 19.8, 24.0, 28.9, 34.9 and 46.9 years) of age at body mass index assessment, 10 genetic PCs —
PPM014944 PGS002751
(GRSrare)
 PSS009938|
European Ancestry|
6,064 individuals
 PGP000363 |
Sapkota Y et al. Nat Med (2022)
 Reported Trait: Obesity — — Odds Ratio (OR, 10th vs. 1st decile): 1.37 [0.66, 2.88] Cubic splines (five knots at 19.8, 24.0, 28.9, 34.9 and 46.9 years) of age at body mass index assessment, 10 genetic PCs —
PPM014945 PGS000027
(GPS_BMI)
 PSS009938|
European Ancestry|
6,064 individuals
 PGP000363 |
Sapkota Y et al. Nat Med (2022)
|Ext.		 Reported Trait: Overweight — — Odds Ratio (OR, 10th vs. 1st decile): 2.74 [1.64, 4.57] Cubic splines (five knots at 19.8, 24.0, 28.9, 34.9 and 46.9 years) of age at body mass index assessment, 10 genetic PCs —
PPM014946 PGS000027
(GPS_BMI)
 PSS009938|
European Ancestry|
6,064 individuals
 PGP000363 |
Sapkota Y et al. Nat Med (2022)
|Ext.		 Reported Trait: Obesity — — Odds Ratio (OR, 10th vs. 1st decile): 10.04 [5.92, 17.01] Cubic splines (five knots at 19.8, 24.0, 28.9, 34.9 and 46.9 years) of age at body mass index assessment, 10 genetic PCs —
PPM014947 PGS000027
(GPS_BMI)
 PSS009938|
European Ancestry|
6,064 individuals
 PGP000363 |
Sapkota Y et al. Nat Med (2022)
|Ext.		 Reported Trait: Severe obesity — — Odds Ratio (OR, 10th vs. 1st decile): 53.05 [17.64, 159.54] Cubic splines (five knots at 19.8, 24.0, 28.9, 34.9 and 46.9 years) of age at body mass index assessment, 10 genetic PCs —
PPM014948 PGS000027
(GPS_BMI)
 PSS009937|
African Ancestry|
449 individuals
 PGP000363 |
Sapkota Y et al. Nat Med (2022)
|Ext.		 Reported Trait: Underweight — — Odds Ratio (OR, 10th vs. 1st decile): 0.0 [0.0, 0.37] Cubic splines (five knots at 19.8, 24.0, 28.9, 34.9 and 46.9 years) of age at body mass index assessment, 10 genetic PCs —
PPM014950 PGS000027
(GPS_BMI)
 PSS009937|
African Ancestry|
449 individuals
 PGP000363 |
Sapkota Y et al. Nat Med (2022)
|Ext.		 Reported Trait: Obesity — — Odds Ratio (OR, 10th vs. 1st decile): 5.92 [1.67, 20.96] Cubic splines (five knots at 19.8, 24.0, 28.9, 34.9 and 46.9 years) of age at body mass index assessment, 10 genetic PCs —
PPM014951 PGS000027
(GPS_BMI)
 PSS009937|
African Ancestry|
449 individuals
 PGP000363 |
Sapkota Y et al. Nat Med (2022)
|Ext.		 Reported Trait: Severe obesity — — Odds Ratio (OR, 10th vs. 1st decile): 19.68 [2.87, 135.02] Cubic splines (five knots at 19.8, 24.0, 28.9, 34.9 and 46.9 years) of age at body mass index assessment, 10 genetic PCs —
PPM014949 PGS000027
(GPS_BMI)
 PSS009937|
African Ancestry|
449 individuals
 PGP000363 |
Sapkota Y et al. Nat Med (2022)
|Ext.		 Reported Trait: Overweight — — Odds Ratio (OR, 10th vs. 1st decile): 3.53 [1.03, 12.09] Cubic splines (five knots at 19.8, 24.0, 28.9, 34.9 and 46.9 years) of age at body mass index assessment, 10 genetic 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
PSS009937 — — 449 individuals,
48.3 % Male samples
 — African American or Afro-Caribbean — NR —
PSS009938 — — 6,064 individuals,
47.9 % Male samples
 — European — NR —