Polygenic Score (PGS) ID: PGS000877

Predicted Trait
Reported Trait Insulin resistance
Mapped Trait(s) insulin resistance (EFO_0002614)
Released in PGS Catalog: Aug. 26, 2021
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Terms and Licenses
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Score Details

Score Construction
PGS Name uwGRS53_IR
Development Method
Name Clumping and Thresholding (C+T)
Parameters Variants associated with insulin resistance phenotypes (higher fasting insulin adjusted for BMI, lower HDL cholesterol and higher triglycerides), p<0.005, lead SNP in each 1Mb region
Variants
Original Genome Build GRCh37
Number of Variants 53
Effect Weight Type Unweighted
PGS Source
PGS Catalog Publication (PGP) ID PGP000223
Citation (link to publication) Lotta LA et al. Nat Genet (2016)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 100%
349,497 individuals (100%)
PGS Evaluation
Not Reported: 62.5%
European: 25%
Multi-ancestry (including European): 12.5%
  • European
  • Not Reported
8 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
Study Identifiers Sample Numbers Sample Ancestry Cohort(s)
Europe PMC: 22885924
 108,557 individuals European 29 cohorts
  • AMC-PAS
  • ,AMISH
  • ,DESIR
  • ,DIAGEN
  • ,DILGOM
  • ,DPS
  • ,DRS_EXTRA
  • ,Ely
  • ,FIN-D2D
  • ,FINRISK
  • ,FUSION
  • ,Fenland
  • ,GoDARTS
  • ,KORA
  • ,LURIC
  • ,Leipzig
  • ,Leipzig_Adults
  • ,METSIM
  • ,NFBC
  • ,ORCADES
  • ,PIVUS
  • ,PROSPER
  • ,SCARFSHEEP
  • ,STR
  • ,SardiNIA
  • ,THISEAS
  • ,TRAILS
  • ,ULSAM
  • ,Whitehall
GWAS Catalog: GCST005185
Europe PMC: 22581228
 51,750 individuals European 27 cohorts
  • AGES
  • ,ARIC
  • ,BLSA
  • ,BSN
  • ,CHS
  • ,CROATIA-KORCULA
  • ,CROATIA-VIS
  • ,CoLaus
  • ,DESIR
  • ,DGI
  • ,ERF
  • ,FHS
  • ,FUSION
  • ,FamHS
  • ,Fenland
  • ,GENOA
  • ,GenomEUtwin
  • ,HABCS
  • ,Health2000
  • ,InCHIANTI
  • ,NESDA
  • ,NFBC
  • ,NTR
  • ,ORCADES
  • ,PROCARDIS
  • ,RS
  • ,SORBS
GWAS Catalog: GCST002223
Europe PMC: 24097068
 94,595 individuals European 23 cohorts
  • AGES
  • ,ARIC
  • ,B58C
  • ,BLSA
  • ,BRIGHT
  • ,CHS
  • ,CoLaus
  • ,DGI
  • ,EPIC-Norfolk
  • ,FHS
  • ,FINRISK
  • ,FUSION
  • ,Fenland
  • ,GENMETS
  • ,GenomEUtwin
  • ,InCHIANTI
  • ,KORA
  • ,LOLIPOP
  • ,MedSTAR
  • ,NFBC
  • ,PennCATH
  • ,RS
  • ,SUVIMAX
GWAS Catalog: GCST002216
Europe PMC: 24097068
 94,595 individuals European 23 cohorts
  • AGES
  • ,ARIC
  • ,B58C
  • ,BLSA
  • ,BRIGHT
  • ,CHS
  • ,CoLaus
  • ,DGI
  • ,EPIC-Norfolk
  • ,FHS
  • ,FINRISK
  • ,FUSION
  • ,Fenland
  • ,GENMETS
  • ,GenomEUtwin
  • ,InCHIANTI
  • ,KORA
  • ,LOLIPOP
  • ,MedSTAR
  • ,NFBC
  • ,PennCATH
  • ,RS
  • ,SUVIMAX

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
PPM002512 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 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 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 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 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 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 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 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] — — — —
PPM020263 PSS011314|
European Ancestry|
4,963 individuals
 PGP000533 |
Skals R et al. PLoS One (2021)
|Ext.		 Reported Trait: Coronary artey disease — — Odds Ratio (OR, top 25% vs bottom 25%): 1.21 [1.03, 1.42] — —
PPM020264 PSS011314|
European Ancestry|
4,963 individuals
 PGP000533 |
Skals R et al. PLoS One (2021)
|Ext.		 Reported Trait: Coronary artey disease — — Odds Ratio (OR, top 25% vs bottom 25%): 1.25 [1.06, 1.48] Gender, age, smoking status, hypertension —
PPM020265 PSS011314|
European Ancestry|
4,963 individuals
 PGP000533 |
Skals R et al. PLoS One (2021)
|Ext.		 Reported Trait: Three-vessel coronary artery disease — — Odds Ratio (OR, top 25% vs bottom 25%): 1.41 [1.1, 1.82] Gender, age, smoking status, hypertension —
PPM020266 PSS011314|
European Ancestry|
4,963 individuals
 PGP000533 |
Skals R et al. PLoS One (2021)
|Ext.		 Reported Trait: Three-vessel coronary artery disease — — Odds Ratio (OR, top 25% vs bottom 25%): 1.36 [1.06, 1.47] — —

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 —
PSS011314 Cases are individuals with significant coronary artery disease. Of the 2,725 individuals with coronary artery disease, 1,345 were defined as having one-vessel, 705 were defined as having two-vessel and 675 were defined as having three-vessel coronary artey disease. —
[
  • 2,725 cases
  • , 2,238 controls
]
,
64.7 % Male samples
 Mean = 65.2 years
Sd = 11.3 years		 European — COGEN —