EpistasisRank and EpistasisKatz: interaction network centrality methods that integrate prior knowledge networks.

ABSTRACT:

Motivation

An important challenge in gene expression analysis is to improve hub gene selection to enrich for biological relevance or improve classification accuracy for a given phenotype. In order to incorporate phenotypic context into co-expression, we recently developed an epistasis-expression network centrality method that blends the importance of gene-gene interactions (epistasis) and main effects of genes. Further blending of prior knowledge from functional interactions has the potential to enrich for relevant genes and stabilize classification.

Results

We develop two new expression-epistasis centrality methods that incorporate interaction prior knowledge. The first extends our SNPrank (EpistasisRank) method by incorporating a gene-wise prior knowledge vector. This prio

SUBMITTER: Parvandeh S 

PROVIDER: S-EPMC7963083 | biostudies-literature | 2019 Jul

REPOSITORIES: biostudies-literature