Reconstructing the pathways of a cellular system from genome-scale signals by using matrix and tensor computations.

ABSTRACT: We describe the use of the matrix eigenvalue decomposition (EVD) and pseudoinverse projection and a tensor higher-order EVD (HOEVD) in reconstructing the pathways that compose a cellular system from genome-scale nondirectional networks of correlations among the genes of the system. The EVD formulates a genes x genes network as a linear superposition of genes x genes decorrelated and decoupled rank-1 subnetworks, which can be associated with functionally independent pathways. The integrative pseudoinverse projection of a network computed from a "data" signal onto a designated "basis" signal approximates the network as a linear superposition of only the subnetworks that are common to both signals and simulates observation of only the pathways that are manifest in both experiments. We define

SUBMITTER: Alter O 

PROVIDER: S-EPMC1308929 | biostudies-literature | 2005 Dec

REPOSITORIES: biostudies-literature