NetMix: A Network-Structured Mixture Model for Reduced-Bias Estimation of Altered Subnetworks.

ABSTRACT: A classic problem in computational biology is the identification of altered subnetworks: subnetworks of an interaction network that contain genes/proteins that are differentially expressed, highly mutated, or otherwise aberrant compared with other genes/proteins. Numerous methods have been developed to solve this problem under various assumptions, but the statistical properties of these methods are often unknown. For example, some widely used methods are reported to output very large subnetworks that are difficult to interpret biologically. In this work, we formulate the identification of altered subnetworks as the problem of estimating the parameters of a class of probability distributions that we call the Altered Subset Distribution (ASD). We derive a connection between a popular

SUBMITTER: Reyna MA 

PROVIDER: S-EPMC8165462 | biostudies-literature | 2021 May

REPOSITORIES: biostudies-literature