Network-based comparison of temporal gene expression patterns.

ABSTRACT:

Motivation

In the pursuits of mechanistic understanding of cell differentiation, it is often necessary to compare multiple differentiation processes triggered by different external stimuli and internal perturbations. Available methods for comparing temporal gene expression patterns are limited to a gene-by-gene approach, which ignores co-expression information and thus is sensitive to measurement noise.

Methods

We present a method for co-expression network based comparison of temporal expression patterns (NACEP). NACEP compares the temporal patterns of a gene between two experimental conditions, taking into consideration all of the possible co-expression modules that this gene may participate in. The NACEP program is available at http://biocomp.bioen.uiuc.edu/nacep.

Resul

SUBMITTER: Huang W 

PROVIDER: S-EPMC2982154 | biostudies-literature | 2010 Dec

REPOSITORIES: biostudies-literature