In this paper we present a methodology to estimate rates of enzymatic reactions in metabolic pathways. Our methodology is based on applying stochastic logic learning in ensemble le...
Background: This paper considers the problem of identifying pathways through metabolic networks that relate to a specific biological response. Our proposed model, HME3M, first ide...
—This paper describes a new logic-based approach for representing and reasoning about metabolic networks. First it shows how biological pathways can be elegantly represented in a...
Background: The subcellular location of a protein is closely related to its function. It would be worthwhile to develop a method to predict the subcellular location for a given pr...
Many useful applications of simulation in computational cell biology, e.g. kinetic parameter estimation, Metabolic Control Analysis (MCA), and bifurcation analysis, require a large...