PGS Publication: PGP000223

Publication Information (EuropePMC)
Title Integrative genomic analysis implicates limited peripheral adipose storage capacity in the pathogenesis of human insulin resistance.
PubMed ID 27841877(Europe PMC)
doi 10.1038/ng.3714
Publication Date Nov. 14, 2016
Journal Nat Genet
Author(s) Lotta LA, Gulati P, Day FR, Payne F, Ongen H, van de Bunt M, Gaulton KJ, Eicher JD, Sharp SJ, Luan J, De Lucia Rolfe E, Stewart ID, Wheeler E, Willems SM, Adams C, Yaghootkar H, EPIC-InterAct Consortium, Cambridge FPLD1 Consortium, Forouhi NG, Khaw KT, Johnson AD, Semple RK, Frayling T, Perry JR, Dermitzakis E, McCarthy MI, Barroso I, Wareham NJ, Savage DB, Langenberg C, O'Rahilly S, Scott RA.
Released in PGS Catalog: Aug. 26, 2021

Associated Polygenic Score(s)

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Individuals included in:
G - Source of Variant Associations (GWAS)
D - Score Development/Training
E - PGS Evaluation
List of ancestries includes:
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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)
PGS000877
(uwGRS53_IR)
 PGP000223 |
Lotta LA et al. Nat Genet (2016)
 Insulin resistance insulin resistance 53
-
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000877/ScoringFiles/PGS000877.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
PPM002512 PGS000877
(uwGRS53_IR)
 PSS001134|
Ancestry Not Reported|
9,747 individuals
 PGP000223 |
Lotta LA et al. Nat Genet (2016)
 Reported Trait: Leg fat mass — — Beta (top 20% vs bottom 20%): -712.0 [-905.0, -519.0] — Beta value = fat mass in grams
PPM002513 PGS000877
(uwGRS53_IR)
 PSS001131|
European Ancestry|
16,687 individuals
 PGP000223 |
Lotta LA et al. Nat Genet (2016)
 Reported Trait: Incident type II diabetes — — Hazard Ratio (HR, top 20% vs. bottom 20%): 1.39 [1.25, 1.54] — —
PPM002514 PGS000877
(uwGRS53_IR)
 PSS001133|
Ancestry Not Reported|
10,330 individuals
 PGP000223 |
Lotta LA et al. Nat Genet (2016)
 Reported Trait: Alanine aminotransferase levels β: 0.054 (0.009) — — — —
PPM002515 PGS000877
(uwGRS53_IR)
 PSS001133|
Ancestry Not Reported|
10,330 individuals
 PGP000223 |
Lotta LA et al. Nat Genet (2016)
 Reported Trait: Gamma glutamyl transferase levels β: 0.054 (0.009) — — — —
PPM002508 PGS000877
(uwGRS53_IR)
 PSS001129|
Ancestry Not Reported|
2,764 individuals
 PGP000223 |
Lotta LA et al. Nat Genet (2016)
 Reported Trait: Insulin sensitivity β: -0.09 (0.019) — — — —
PPM002509 PGS000877
(uwGRS53_IR)
 PSS001130|
Ancestry Not Reported|
4,769 individuals
 PGP000223 |
Lotta LA et al. Nat Genet (2016)
 Reported Trait: Insulin sensitivity index β: -0.1 (0.016) — — — —
PPM002510 PGS000877
(uwGRS53_IR)
 PSS001132|
Multi-ancestry (including European)|
276,194 individuals
 PGP000223 |
Lotta LA et al. Nat Genet (2016)
 Reported Trait: Type II diabetes OR: 1.12 [1.11, 1.14] — — — —
PPM002511 PGS000877
(uwGRS53_IR)
 PSS001128|
Ancestry Not Reported|
194,427 individuals
 PGP000223 |
Lotta LA et al. Nat Genet (2016)
 Reported Trait: Coronary heart disease OR: 1.05 [1.04, 1.06] — — — —

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
PSS001128 Cases were individuals with coronary heart disease —
[
  • 63,746 cases
  • , 130,681 controls
]
 — Not reported — CARDIoGRAMplusC4D —
PSS001129 All individuals had insulin sensitivity measured by euglycemic clamp or insulin suppression. — 2,764 individuals — Not reported — GENESIS —
PSS001130 All individuals had insulin sensitivity index calculated via frequently sampled oral glucose tolerance tests. — 4,769 individuals — Not reported — MAGIC —
PSS001131 Cases were individuals that developed type II diabetes Mean = 8.0 years
[
  • 7,420 cases
  • , 9,267 controls
]
 — European — InterAct —
PSS001132 Cases were individuals with type II diabetes —
[
  • 45,836 cases
  • , 230,358 controls
]
 — European, NR European, NR DIAGRAM, InterAct, UKB —
PSS001133 Individuals were used to calculate alanine aminotransferase and gamma glutamyl transferase levels — 10,330 individuals — Not reported — Fenland —
PSS001134 Individuals were used to calculate leg fat mass using dual-energy X-ray absorptiometry. — 9,747 individuals — Not reported — Fenland —