Association study based on topological constraints of protein-protein interaction networks.

ABSTRACT: The non-random interaction pattern of a protein-protein interaction network (PIN) is biologically informative, but its potentials have not been fully utilized in omics studies. Here, we propose a network-permutation-based association study (NetPAS) method that gauges the observed interactions between two sets of genes based on the comparison between permutation null models and the empirical networks. This enables NetPAS to evaluate relationships, constrained by network topology, between gene sets related to different phenotypes. We demonstrated the utility of NetPAS in 50 well-curated gene sets and comparison of association studies using Z-scores, modified Z'-scores, p-values and Jaccard indices. Using NetPAS, a weighted human disease network was generated from the association scores of 19

SUBMITTER: Guo HB 

PROVIDER: S-EPMC7329836 | biostudies-literature | 2020 Jul

REPOSITORIES: biostudies-literature