The fundamental principle behind the Biological Networks project is that disease phenotypes emerge from genotypes via the network properties of interactions between the underlying biological components. These phenotypes are best conceptualised as consequences of perturbations to disease modules of the biological networks in the cell, whether at the node level (disease genes) or the link level (disease edgotypes). We integrate patient-specific gene expression and protein interaction data to elucidate the precise basis of conditions from Parkinson's to asthma to heart disease. With the further analysis of drug-disease association and drug-target association data, we investigate the effects - therapeutic and undesired - of the associated medication. Understanding the molecular level networks allows us to understand the connections between different diseases and the effects of drugs designed to target them, paving the way for personalised treatments based on one's own interactome.