Elucidating the genotype-phenotype map by automatic enumeration and analysis of the phenotypic repertoire.

ABSTRACT:

Background

The gap between genotype and phenotype is filled by complex biochemical systems most of which are poorly understood. Because these systems are complex, it is widely appreciated that quantitative understanding can only be achieved with the aid of mathematical models. However, formulating models and measuring or estimating their numerous rate constants and binding constants is daunting. Here we present a strategy for automating difficult aspects of the process.

Methods

The strategy, based on a system design space methodology, is applied to a class of 16 designs for a synthetic gene oscillator that includes seven designs previously formulated on the basis of experimentally measured and estimated parameters.

Results

Our strategy provides four important innovati

SUBMITTER: Lomnitz JG 

PROVIDER: S-EPMC4794114 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature