Polygenic Score (PGS) ID: PGS001351

Predicted Trait
Reported Trait Fasting insulin
Mapped Trait(s) blood insulin amount (OBA_VT0001560)
Released in PGS Catalog: Nov. 4, 2021
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Terms and Licenses
PGS obtained from the Catalog should be cited appropriately, and used in accordance with any licensing restrictions set by the authors. See EBI Terms of Use (https://www.ebi.ac.uk/about/terms-of-use/) for additional details.

Score Details

Score Construction
PGS Name MAGICTA_EUR_PGS_FI
Development Method
Name PRS-CS
Parameters auto
Variants
Original Genome Build GRCh37
Number of Variants 1,025,098
Effect Weight Type NR
PGS Source
PGS Catalog Publication (PGP) ID PGP000246
Citation (link to publication) Chen J et al. Nat Genet (2021)
Ancestry Distribution
Source of Variant
Associations (GWAS)
European: 100%
151,013 individuals (100%)
Score Development/Training
European: 100%
95,002 individuals (100%)
PGS Evaluation
African: 40%
European: 40%
East Asian: 20%
5 Sample Sets

Development Samples

Source of Variant Associations (GWAS)
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Study Identifiers
Sample Numbers
Sample Ancestry
Cohort(s)
GWAS Catalog: GCST90002238
Europe PMC: 34059833
151,013 individualsEuropean55 cohorts
  • AGES
  • ,ALSPAC
  • ,AMISH
  • ,ARIC
  • ,B58C
  • ,CHS
  • ,CROATIA-KORCULA
  • ,CROATIA-VIS
  • ,CoLaus
  • ,DGI
  • ,DIAGEN
  • ,DPS
  • ,DRS_EXTRA
  • ,EGCUT
  • ,ERF
  • ,Ely
  • ,FHS
  • ,FIN-D2D
  • ,FUSION
  • ,FamHS
  • ,Fenland
  • ,GENOA
  • ,GOYA
  • ,GeneSTAR
  • ,GoDARTS
  • ,HELIC
  • ,Health2006
  • ,IMPROVE
  • ,InCHIANTI
  • ,Inter99
  • ,KORA
  • ,LLS
  • ,LOLIPOP
  • ,LURIC
  • ,Leipzig
  • ,Leipzig_Adults
  • ,MESA
  • ,METSIM
  • ,NEO
  • ,NFBC
  • ,NTR
  • ,OBB
  • ,ORCADES
  • ,PIVUS
  • ,PREVEND
  • ,PROSPER
  • ,RISC
  • ,RS
  • ,SCARFSHEEP
  • ,SardiNIA
  • ,TRAILS
  • ,TwinsUK
  • ,ULSAM
  • ,VIKING
  • ,Whitehall
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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
—95,002 individualsEuropean38 cohorts
  • AGES
  • ,ALSPAC
  • ,AMISH
  • ,CFS
  • ,CHS
  • ,CROATIA-KORCULA
  • ,CROATIA-VIS
  • ,CoLaus
  • ,DGI
  • ,EGCUT
  • ,ERF
  • ,FHS
  • ,FUSION
  • ,FamHS
  • ,Fenland
  • ,GENOA
  • ,GOYA
  • ,GeneSTAR
  • ,HELIC
  • ,InCHIANTI
  • ,KORA
  • ,LLS
  • ,LOLIPOP
  • ,LURIC
  • ,MESA
  • ,NEO
  • ,NFBC
  • ,ORCADES
  • ,PIVUS
  • ,PREVEND
  • ,PROSPER
  • ,RISC
  • ,RS
  • ,SORBS
  • ,SardiNIA
  • ,TRAILS
  • ,TwinsUK
  • ,ULSAM
————Additional participants were obtained from French Adult Control, French Adult Obese, French Young Obese, Raine Study, BC1936, Fendland-OMICS, HELICMANOLIS
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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
PPM005138PSS003590|
European Ancestry|
29,123 individuals
PGP000246 |
Chen J et al. Nat Genet (2021)
Reported Trait: Fasting insulin——R²: 0.095——
PPM005141PSS003588|
African Ancestry|
8,101 individuals
PGP000246 |
Chen J et al. Nat Genet (2021)
Reported Trait: Fasting insulin——R²: 0.028——
PPM005144PSS003589|
East Asian Ancestry|
26,691 individuals
PGP000246 |
Chen J et al. Nat Genet (2021)
Reported Trait: Fasting insulin——R²: 0.014——
PPM020887PSS011442|
European Ancestry|
564 individuals
PGP000599 |
Guarischi-Sousa R et al. Circ Genom Precis Med (2023)
|Ext.		Reported Trait: Raised coronary lesionOR: 1.1 [0.91, 1.34]————
PPM020892PSS011441|
African Ancestry|
504 individuals
PGP000599 |
Guarischi-Sousa R et al. Circ Genom Precis Med (2023)
|Ext.		Reported Trait: Raised coronary lesionOR: 1.15 [0.92, 1.42]————
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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
PSS003588——8,101 individuals—African American or Afro-Caribbean—9 cohorts
  • ARIC
  • ,CHS
  • ,FamHS
  • ,GENOA
  • ,GeneSTAR
  • ,HANDLS
  • ,JHS
  • ,MESA
  • ,WHI
—
PSS003589——26,691 individuals—East Asian
(Japanese, Filipino, Chinese, Han Chinese)		—10 cohorts
  • AASC
  • ,CAGE
  • ,CHNS
  • ,CRC
  • ,KARE
  • ,MESA
  • ,NHAPC
  • ,Nagahama_Study
  • ,SMHS
  • ,SP2
—
PSS003590——29,123 individuals—European—ARIC, METSIM, NTR, PROCARDIS—
PSS011441——
[
  • 165 cases
  • , 339 controls
]
,
82.0 % Male samples
Mean = 27.5 yearsAfrican unspecified—PDAY—
PSS011442——
[
  • 181 cases
  • , 383 controls
]
,
77.0 % Male samples
Mean = 26.7 yearsEuropean—PDAY—
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