Experimental guidance for discovering genetic networks through hypothesis reduction on time series
Fig 2
Schematic of the network finding step.
From upper left in a horseshoe to lower left: The node finding step produces a thresholded list of nodes that are passed into edge finding. Edge finding ranks all possible edges between these top nodes and the very top ranked of these are used to create a seed network. The seed network is the initial condition for a neighborhood search in network space. In this neighborhood, a collection of strongly connected networks are sampled and scored according to user-specified choices of the oscillation and pattern match scores in Table 1. The participation and prevalence of nodes and edges in the top ranked networks globally matching the dynamics in the experimental data permit a reordering of nodes and edges that provides hypotheses for experimental guidance.