Figure 3.

SED-ML document content. Graphical representation of the contents of the SED-ML document describing simulation experiments performed on the Repressilator model [25]. Three outputs are specified. Output 1 (left) displays a plot of levels of three proteins against time, showing regular oscillations. Output 2 (right) produces a plot of the same three protein levels against time after altering the model to produce damped oscillations. Output 3 (center) describes a plot of a simulation of regular oscillations, but after normalizing results and plotting the normalized amounts of each protein against each other. The simulations are described in more detail in Section 1.1 of the SED-ML specification [24], and the SED-ML document is available from the additional file 1.