Analysis of combinatorial cis-regulation in synthetic and genomic promoters.

ABSTRACT: Transcription factor binding sites are being discovered at a rapid pace. It is now necessary to turn attention towards understanding how these sites work in combination to influence gene expression. Quantitative models that accurately predict gene expression from promoter sequence will be a crucial part of solving this problem. Here we present such a model, based on the analysis of synthetic promoter libraries in yeast (Saccharomyces cerevisiae). Thermodynamic models based only on the equilibrium binding of transcription factors to DNA and to each other captured a large fraction of the variation in expression in every library. Thermodynamic analysis of these libraries uncovered several phenomena in our system, including cooperativity and the effects of weak binding sites. When applied to t

SUBMITTER: Gertz J 

PROVIDER: S-EPMC2677908 | biostudies-literature | 2009 Jan

REPOSITORIES: biostudies-literature