Persistent homology analysis of type 2 diabetes genome-wide association studies in protein-protein interaction networks.

ABSTRACT: Genome-wide association studies (GWAS) involving increasing sample sizes have identified hundreds of genetic variants associated with complex diseases, such as type 2 diabetes (T2D); however, it is unclear how GWAS hits form unique topological structures in protein-protein interaction (PPI) networks. Using persistent homology, this study explores the evolution and persistence of the topological features of T2D GWAS hits in the PPI network with increasing p-value thresholds. We define an n-dimensional persistent disease module as a higher-order generalization of the largest connected component (LCC). The 0-dimensional persistent T2D disease module is the LCC of the T2D GWAS hits, which is significantly detected in the PPI network (196 nodes and 235 edges, P<0.05). In the 1-dim

SUBMITTER: Song E 

PROVIDER: S-EPMC10562725 | biostudies-literature | 2023

REPOSITORIES: biostudies-literature