Building Disease-Specific Drug-Protein Connectivity Maps from Molecular Interaction Networks and PubMed Abstracts
Figure 2
A computational framework for developing molecular connectivity maps in any given disease context.
The framework consists of three components: network construction, text retrieval and information extraction, and molecular connectivity mapping. The network construction component takes the inputs of disease-specific seed proteins and outputs a disease-related protein interaction network with a ranked list of disease-related proteins. The text retrieval and information extraction component takes synonym-expanded disease-related proteins and outputs a list of drug terms enriched in the retrieved collection of PubMed abstracts. The molecular connectivity mapping component takes two inputs—disease-related proteins from constructed protein interaction network in the first component, and enriched drug terms in the second component—and outputs a drug-protein connectivity map, in which further knowledge filters and clustering analysis can be applied.