Network hub-node prioritization of gene regulation with intra-network association.

ABSTRACT:

Background

To identify and prioritize the influential hub genes in a gene-set or biological pathway, most analyses rely on calculation of marginal effects or tests of statistical significance. These procedures may be inappropriate since hub nodes are common connection points and therefore may interact with other nodes more often than non-hub nodes do. Such dependence among gene nodes can be conjectured based on the topology of the pathway network or the correlation between them.

Results

Here we develop a pathway activity score incorporating the marginal (local) effects of gene nodes as well as intra-network affinity measures. This score summarizes the expression levels in a gene-set/pathway for each sample, with weights on local and network information, respectively. The sco

SUBMITTER: Chang HC 

PROVIDER: S-EPMC7069025 | biostudies-literature | 2020 Mar

REPOSITORIES: biostudies-literature