RACIPE: a computational tool for modeling gene regulatory circuits using randomization.

ABSTRACT:

Background

One of the major challenges in traditional mathematical modeling of gene regulatory circuits is the insufficient knowledge of kinetic parameters. These parameters are often inferred from existing experimental data and/or educated guesses, which can be time-consuming and error-prone, especially for large networks.

Results

We present a user-friendly computational tool for the community to use our newly developed method named random circuit perturbation (RACIPE), to explore the robust dynamical features of gene regulatory circuits without the requirement of detailed kinetic parameters. Taking the network topology as the only input, RACIPE generates an ensemble of circuit models with distinct randomized parameters and uniquely identifies robust dynamical properties by

SUBMITTER: Huang B 

PROVIDER: S-EPMC6006707 | biostudies-literature | 2018 Jun

REPOSITORIES: biostudies-literature