Simulating genetic networks made easy: network construction with simple building blocks.

ABSTRACT

UNLABELLED We present SIM-plex, a genetic network simulator with a very intuitive interface in which a user can easily specify interactions as simple 'if-then' statements. The simulator is based on the mathematical model of Piecewise Linear Differential Equations (PLDEs). With PLDEs, genetic interactions are approximated as acting in a switch-like manner. AVAILABILITY: The Java program, examples and a tutorial are available at http//www.psb.ugent.be/cbd/ CONTACT {stcru,makui}@psb.ugent.be