Using network component analysis to dissect regulatory networks mediated by transcription factors in yeast.

ABSTRACT: Understanding the relationship between genetic variation and gene expression is a central question in genetics. With the availability of data from high-throughput technologies such as ChIP-Chip, expression, and genotyping arrays, we can begin to not only identify associations but to understand how genetic variations perturb the underlying transcription regulatory networks to induce differential gene expression. In this study, we describe a simple model of transcription regulation where the expression of a gene is completely characterized by two properties: the concentrations and promoter affinities of active transcription factors. We devise a method that extends Network Component Analysis (NCA) to determine how genetic variations in the form of single nucleotide polymorphisms (SNPs) pertur

SUBMITTER: Ye C 

PROVIDER: S-EPMC2649002 | biostudies-literature | 2009 Mar

REPOSITORIES: biostudies-literature