Prediction of Type 2 Diabetes using genomics and proteomics: the HUNT Study

Type 2 diabetes (T2D) is a multifactorial metabolic disorder with an increasing global prevalence and significant health burdens. Early identification of individuals at high risk is crucial for timely intervention and prevention of T2D and complications. This study aims to investigate the association between the blood plasma proteome and T2D, identify protein biomarkers associated with incident T2D, and explore the underlying biological pathways involved in the disease development in the Trondelag Health Study (HUNT). The HUNT Study is a population-based cohort with four waves of enrolment beginning in 1984. Samples from HUNT3 were analysed with SomaScan including 3,221 using SomaScanv4.0 (HUNT-Soma5k, ~5,000 proteins) and 2,181 on SomaScanv4.1 (HUNT-Soma7k, ~7,000 proteins). We performed logistic regression and least absolute shrinkage and selection operator (LASSO) to generate the protein risk scores, and gene set enrichment analysis (GSEA) to identify potential biological pathways for incident T2D. We identified 313 (308 proteins) and 142 (128 proteins) aptamers that are significantly associated with incident T2D, in HUNT-Soma5k and HUNT-Soma7k, respectively. In HUNT-Soma5k, MXRA8 has strongest association with decreased risk and PLXB2 has strongest association with increased risk; while IGFBP2 has strongest association with decreased risk and INHBC has strongest association with increased risk for incident T2D in HUNT-Soma7k. The most significant pathway from GO Biological Process is organic acid metabolic process in both datasets. The associated proteins and biological pathways identified represent insights into the underlying molecular mechanism of T2D and may serve as potential biomarkers for risk prediction and prevention for T2D.