| Predicted Trait | |
| Reported Trait | Type 2 diabetes mellitus |
| Mapped Trait(s) | type 2 diabetes mellitus (MONDO_0005148) |
| Additional Trait Information | Multi-latent polygenic score: LASSO combination of the 49 cardiac-MRI latent PRS to predict type 2 diabetes mellitus. |
| Score Construction | |
| PGS Name | MultiPRS_type-2-diabetes |
| Development Method | |
| Name | LASSO (L1-penalised logistic regression) |
| Parameters | LASSO combination of the 49 individual latent-phenotype PRS (scikit-learn LogisticRegressionCV, L1 penalty, saga solver, stratified 5-fold CV). The scoring file contains the collapsed per-variant weights of the genetic (PRS) component only; model covariates (age, sex, body surface area, 20 genetic PCs) are applied separately and are NOT part of the scoring file. |
| Variants | |
| Original Genome Build | GRCh37 |
| Number of Variants | 1,105,536 |
| Effect Weight Type | beta |
| PGS Source | |
| PGS Catalog Publication (PGP) ID | PGP000826 |
| Citation (link to publication) | Ometto S et al. Nat Commun (2026) |
| Ancestry Distribution | |
| PGS Evaluation | European: 100% 3 Sample Sets |
|
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 |
|---|---|---|---|---|---|---|---|---|
| PPM036551 | PSS012307| European Ancestry| 8,220 individuals |
PGP000826 | Ometto S et al. Nat Commun (2026) |
Reported Trait: Prevalent Type 2 diabetes mellitus | OR: 6.87 | AUROC: 0.7912 | — | age, sex, body surface area, PC1-PC20 | Multi-PRS + baseline (diagnostic). OR per 1 SD of PRS (logOR=1.9275); DeLong p=0.0090413145552858. Sex='Both' (male/female strata also in Suppl. Data 27). |
| PPM036552 | PSS012308| European Ancestry| 10,653 individuals |
PGP000826 | Ometto S et al. Nat Commun (2026) |
Reported Trait: Incident Type 2 diabetes mellitus (1-10 yr) | HR: 1.09 [1.07, 1.11] OR: 6.2 |
AUROC: 0.7828 | — | age, sex, body surface area, PC1-PC20 | Multi-PRS + baseline (prognostic, 1-10 yr). OR per 1 SD (logOR=1.8243); HR per SD of PRS from Cox model (col D); DeLong p=0.0107009135768837. Sex='Both'. |
| PPM036553 | PSS012309| European Ancestry| 22,631 individuals |
PGP000826 | Ometto S et al. Nat Commun (2026) |
Reported Trait: Type 2 diabetes mellitus | OR: 6.21 | AUROC: 0.7845 | — | age, sex, body surface area, PC1-PC20 | Multi-PRS + baseline (whole cohort). OR per 1 SD (logOR=1.8267); DeLong p=7.101564876034609e-05. Sex='Both'. |
|
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 |
|---|---|---|---|---|---|---|---|---|
| PSS012307 | Balanced case/control cohort: cases from UK Biobank hospital/EHR & self-report; equal number of super-controls (no cardiac/metabolic disease) matched on age and sex. | — | 8,220 individuals | — | European | — | UKB | — |
| PSS012308 | Balanced case/control cohort: cases from UK Biobank hospital/EHR & self-report; equal number of super-controls (no cardiac/metabolic disease) matched on age and sex. | — | 10,653 individuals | — | European | — | UKB | — |
| PSS012309 | Balanced case/control cohort: cases from UK Biobank hospital/EHR & self-report; equal number of super-controls (no cardiac/metabolic disease) matched on age and sex. | — | 22,631 individuals | — | European | — | UKB | — |