Models-of-data and models-of-processes in the post-genomic era

As we are entering the post-genomic era, models-of-data, such as mining and filtering methods for gene sequences and microarrays and the clustering of co-expressed genes, must be complemented with models-of-processes that explain relationships between genomic information and phenomena at biochemical and physiological levels. Many of these models will have the structure of compartment models, whose conceptualization, identification and analysis will fundamentally benefit from the seminal work of John Jacquez. The article indicates with three vignettes that non-linear compartment models in the formulation of biochemical systems theory are viable candidates for post-genomic models-of-processes.