When exchange fluxes were considered, the gene essentiality prediction was found to have an increased accuracy, when compared to the in vitro data (MCC = 0.235, p = 0.010, Fig. 3B).
The decreased essentiality can be readily rationalised, considering the analyses herein of the relationship between orthology and essentiality.
Considering the widespread use of FBA in the systems biology community60, we applied fundamental principles of FBA to measure the accuracy of the predictions against large-scale gene essentiality experiments performed in vitro.
In terms of evolution, however, it is quite unlikely that the placenta of different mammals emerged independently in a convergent manner considering its essentiality in placental mammals.
Such a view about the essentiality of gene function, differs from a synthetic biology view, which considers the genes necessary to specify an operable system which functions outside the natural world.
To efficiently discern the biological meanings and characterize the functional essentiality of the GO terms in the final optimal feature set, we considered the children terms of the aforementioned three types.
It is important to note here, that while high expression is not a necessary condition for the gene to be termed essential, consistent expression across biological samples of the same kind is required for a gene to be considered for essentiality.
First, we considered gene essentialities in metabolism based on the ability to carry flux towards biomass formation.
In this study we considered not only essentiality and synthetic lethality predictions but also disagreements in auxotrophy complementation.
Rather we focused on constructing the network in terms of protein structural disorder and the "essentiality" parameter has not been considered.
The essentiality of each subunit can be considered a success or a failure.
