Nanoparticle-based drug delivery systems provide a feasible method of efficiently delivering drugs in-vivo. These drug delivery systems could greatly benefit from a robust method of nano-scale communication. Additionally, there are numerous naturally occurring nano-scale communication systems and the opportunity to develop a system based on these principles is highly promising. A layered communication protocol provides a simple, succinct method of understanding macro to nano-scale communication systems. This protocol may be used to expand and eventually apply commonly used telecommunications techniques to nanoparticle signalling. Such a protocol may begin to pave the way for future communication systems at a nano-scale.