Good point. It really depends on what area in biology you're in. For immunology, pathology, and, honestly, most subfields, you're closer to phenomenology than emergence.
I will say that I'm skeptical of a lot of the work done in biology in relation to networks and complexity. It's often either done by those without sufficient mathematical background (and, typically, wholly statistically invalid) or a bunch of hand-wavy, feel-good nonsense for a sexy tagline by those who should know better.
Better work is done by researchers in complexity who analyze biological systems.