You are not logged in, Register or Log in:

popFBA: tackling intratumour heterogeneity with Flux Balance Analysis (2017)


Damiani, C, Di Filippo, M, Pescini, D, Maspero, D, Colombo, R, Mauri, G (2017). popFBA: tackling intratumour heterogeneity with Flux Balance Analysis. Bioinformatics, 33, 14:i311-i318.



Intratumour heterogeneity poses many challenges to the treatment of cancer. Unfortunately, the transcriptional and metabolic information retrieved by currently available computational and experimental techniques portrays the average behaviour of intermixed and heterogeneous cell subpopulations within a given tumour. Emerging single-cell genomic analyses are nonetheless unable to characterize the interactions among cancer subpopulations. In this study, we propose popFBA , an extension to classic Flux Balance Analysis, to explore how metabolic heterogeneity and cooperation phenomena affect the overall growth of cancer cell populations.


We show how clones of a metabolic network of human central carbon metabolism, sharing the same stoichiometry and capacity constraints, may follow several different metabolic paths and cooperate to maximize the growth of the total population. We also introduce a method to explore the space of possible interactions, given some constraints on plasma supply of nutrients. We illustrate how alternative nutrients in plasma supply and/or a dishomogeneous distribution of oxygen provision may affect the landscape of heterogeneous phenotypes. We finally provide a technique to identify the most proliferative cells within the heterogeneous population.


the popFBA MATLAB function and the SBML model are available at .


Integrating experimental and in silico worlds

A complete systems biology approach requires integration between biological info and expertize, and modeling and computational skills. SYSBIO push its memebrs in putting themselves in the shoes of the other, and converge towards common views and results.