Visualizing the robustness of the endocycle gene network with respect to parameter variation. The view is made up of three different plots. The top left plot is the output of the endocycle. Each protein involved has a scaled concentration ranging from 0 to 1 and has a unique color on the plot (The names of the proteins are in the same color as their concentration curve). We looked specifically at the output of CYCE and E2F. For the CYCE curve we wanted sharp narrow peaks with large spacing between them. For the E2F curve we wanted the peaks larger than CYCE and sharp but rising more lowly than CYCE. I wrote scoring functions to grade the output of each curve. The results of those scoring functions are shown in the top right curve. The scoring functions are normalized from 0 to 1 with a score of 0 being the best and 1 the worst. The blue line is the score for CYCE, the red line is the score for E2F, and the magenta line is the sum of the CYCE and E2F scores. The bottom plot shows the robustness of the circuit to parameter variation. Each of the tunable parameters in the network lay along the horizontal axis. They represent things like half lives and phosphorylation/dephosphorylation rates. They all have scaled values that go from 0 to 1 which lay along the vertical axis. The white line running across the bottom graph is the representation of an individual parameter set. Each kink in the line represents an individual parameter and its corresponding scaled value. This is a 22-dimensional parameter space we are looking at and so it is difficult to get an intuition about the local region around a parameter set in this space. This white line will always be present in the movie as it corresponds to the initial parameter set whose local region we are exploring. My way of viewing this is to color the individual parameter sets red if they represent low total scores for CYCE and E2F, and color them blue if they are high, and some color in between for moderate scores. In this way we can see at a glance that the region around this parameter set is mostly colored red which means it has a low total score in this area indicating the output of the network is desirable and the endocycle is functioning properly. As the movie plays the individual parameter set shown is drawn in gray in the bottom plot, and its output is shown in the top left plot, and its score is shown in the top right plot. Each frame of the movie is part of a transect along a specific parameter axis starting at its lowest value and ending at its highest value while keeping all the other parameter values (white line) the same. The top right plot represents the a view of an individual transect; the bead represents the current score for the current parameter set being looked at.