The most significant aspect of Monod which has some biological inspiration has already been introduced in the lower layers of the design stack: it is the mechanism of binding, which plays the role of molecular recognition in cells.
The next layers introduce many more features of Monod which are biologically inspired, and hopefully computationally relevant. In the first section, we present aspects of cell biology which we want to incorporate in the Monod model. The next two sections introduce the next two layers of the design stack.