Surfing a genetic association interaction network to identify modulators of antibody response to smallpox vaccine.

ABSTRACT: The variation in antibody response to vaccination likely involves small contributions of numerous genetic variants, such as single-nucleotide polymorphisms (SNPs), which interact in gene networks and pathways. To accumulate the bits of genetic information relevant to the phenotype that are distributed throughout the interaction network, we develop a network eigenvector centrality algorithm (SNPrank) that is sensitive to the weak main effects, gene-gene interactions and small higher-order interactions through hub effects. Analogous to Google PageRank, we interpret the algorithm as the simulation of a random SNP surfer (RSS) that accumulates bits of information in the network through a dynamic probabilistic Markov chain. The transition matrix for the RSS is based on a data-driven genetic ass

SUBMITTER: Davis NA 

PROVIDER: S-EPMC3001955 | biostudies-literature | 2010 Dec

REPOSITORIES: biostudies-literature