HLA-focused type 1 diabetes genetic risk prediction in populations of diverse ancestry
Authors' conclusion
T1D GRSHLA models derived from SNPs performed equivalently to those derived from HLA alleles across ancestries. In addition, T1D GRSHLA-SNP-ALL and GRSHLA-allele-ALL models had consistently high ROC AUC values when applied across ancestry groups. Larger studies in more diverse populations are needed to better assess the transferability of T1D GRSHLA across ancestries.
Study context
- Population
- Samples from four ancestry groups (admixed African, admixed American, European, Finnish); 13,695 SNPs in the HLA region genotyped
- Participants
- 41,689 samples
- Comparison
- HLA-focused T1D GRS models derived from SNPs vs HLA alleles, across four ancestry groups and across-ancestry
- Outcome
- Performance of each T1D GRSHLA model by ROC AUC
Methodological detailsmulti-ancestry, HLA imputation (HLA-TAPAS multi-ethnic reference panel)
- Multi-ancestry
- HLA imputation (HLA-TAPAS multi-ethnic reference panel)
Main finding
As reported in the abstract
ROC AUC for GRSHLA from SNPs or HLA alleles similar; range from GRSHLA-allele-AMR applied to FIN to GRSHLA-allele-EUR applied to EUR
0.73 to 0.88
GRSHLA-SNP-ALL ROC AUC across all ancestry groups
0.82 to 0.88
GRSHLA-allele-ALL ROC AUC across all ancestry groups
0.80 to 0.87
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Original publication
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