Reverse engineering the gap gene network of Drosophila melanogaster.

ABSTRACT: A fundamental problem in functional genomics is to determine the structure and dynamics of genetic networks based on expression data. We describe a new strategy for solving this problem and apply it to recently published data on early Drosophila melanogaster development. Our method is orders of magnitude faster than current fitting methods and allows us to fit different types of rules for expressing regulatory relationships. Specifically, we use our approach to fit models using a smooth nonlinear formalism for modeling gene regulation (gene circuits) as well as models using logical rules based on activation and repression thresholds for transcription factors. Our technique also allows us to infer regulatory relationships de novo or to test network structures suggested by the literature. We

SUBMITTER: Perkins TJ 

PROVIDER: S-EPMC1463021 | biostudies-literature | 2006 May

REPOSITORIES: biostudies-literature