Journal Papers Modeling cellular compartmentation in one- carbon metabolism


Folate-mediated one-carbon metabolism (OCM) is associated with risk for numerous pathological states including birth defects, cancers, and chronic diseases. Although the enzymes that constitute the biological pathways have been well described and their interdependency through the shared use of folate cofactors appreciated, the biological mechanisms underlying disease etiologies remain elusive. The OCM network is highly sensitive to nutritional status of several B-vitamins and numerous penetrant gene variants that alter network outputs, but current computational approaches do not fully capture the dynamics and stochastic noise of the system. Combining the stochastic approach with a rule-based representation will help model the intrinsic noise displayed by OCM, address the limited flexibility of standard simulation methods for coarse-graining the OCM-associated biochemical processes, and manage the combinatorial complexity emerging from reactions within OCM that would otherwise be intractable.

Paper Details


M. Scotti,  L. Stella,  E. Shearer,  P. Stover


WIREs Systems Biology and Medicine, 5, , 343-365