Predicted Trait | |
Reported Trait | Type 2 diabetes (T2D) |
Mapped Trait(s) | type 2 diabetes mellitus (MONDO_0005148) |
Additional Trait Information | Diabetes diagnosed by doctor; Binary |
Score Construction | |
PGS Name | ExPRSweb_T2D_2443_LASSOSUM_MGI_20211120 |
Development Method | |
Name | lassosum |
Parameters | Lassosum 0.4.4 (MAF >= 1%; autosomal variants only)s=0.9;Lambda=0.00264 |
Variants | |
Original Genome Build | GRCh37 |
Number of Variants | 488,969 |
Effect Weight Type | beta |
PGS Source | |
PGS Catalog Publication (PGP) ID | PGP000393 |
Citation (link to publication) | Ma Y et al. Am J Hum Genet (2022) |
Study Identifiers | Sample Numbers | Sample Ancestry | Cohort(s) |
---|---|---|---|
[
|
European | UKB |
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 |
---|---|---|---|---|---|---|---|---|
— | [
|
European | MGI | PheCode 250.2 (http://phewascatalog.org/); Binary | — | — | — | — |
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 |
---|---|---|---|---|---|---|---|---|
PPM015993 | PSS010014| European Ancestry| 21,356 individuals |
PGP000393 | Ma Y et al. Am J Hum Genet (2022) |
Reported Trait: Type 2 Diabetes | OR: 1.524 [1.468, 1.583] β: 0.422 (0.0191) |
AUROC: 0.616 [0.6, 0.63] | — | SEX,AGE,Batch,PC1,PC2,PC3,PC4 | — |
PPM022801 | PSS012080| Greater Middle Eastern Ancestry| 4,534 individuals |
PGP000753 | Aliyu U et al. Diabetes Obes Metab (2025) |Ext. |
Reported Trait: Prediabetes | OR: 1.126 [1.057, 1.2] | AUROC: 0.643 [0.627, 0.659] | R²: 0.079 | sex, baseline age, BMI, PCs1-10 | — |
PPM022958 | PSS012081| Greater Middle Eastern Ancestry| 2,143 individuals |
PGP000753 | Aliyu U et al. Diabetes Obes Metab (2025) |Ext. |
Reported Trait: Incident T2D in prediabetics | HR: 1.386 [1.19, 1.616] | AUROC: 0.756 [0.721, 0.791] | — | sex, baseline age, BMI, PCs1-10 | — |
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 |
---|---|---|---|---|---|---|---|---|
PSS012080 | age-matched cohort | — | [
|
— | Greater Middle Eastern (Middle Eastern, North African or Persian) (Qatari) |
— | QBB | — |
PSS012081 | — | Median = 6.0 years | [ ,
54.22 % Male samples |
— | Greater Middle Eastern (Middle Eastern, North African or Persian) (Qatari) |
— | QBB | — |
PSS010014 | PheCode 250.2 (http://phewascatalog.org/); Binary | — | [
|
— | European | — | MGI | — |