Exact(1)
In some organisms, most of genes do indeed have essentiality values close to either 0 or 1, while in others a majority of genes have intermediate values of essentiality.
Similar(59)
To test whether having essential orthologues in S. cerevisiae predicted essentiality in the corresponding C. elegans genes, we identified orthology groups containing non-paralogous C. elegans and S. cerevisiae genes that had been subjected to essentiality analysis.
Analysis of complex forming versus noncomplex proteins demonstrates that proteins in complexes have higher essentiality than the noncomplex proteins (average essentiality of complex proteins: 0.1665 (±0.0045) (N = 867), noncomplex proteins: 0.1002 (±0.0014) (N = 3,348); Mann–Whitney U test, P = 1.1 × 10−).
Eighty-three percent of the one-to-one orthologs between Sch. pombe and S. cerevisiae have conserved essentiality, that is, they are nonessential in both species or essential in both species.
On the contrary, cluster 1 has higher number of surrounding clusters that have complete essentiality (= 1.000), which shows that they are more directly associated with biomass formation.
This suggests that functions involved in amino acid transport and metabolism, translation, ribosomal structure and biogenesis, and energy production and conversion have more essentiality in prokaryotic organisms.
First, reactions involved in clusters 1 to 44 had average essentiality of 0.744 and 0.748 for the wild-type and lpdA knockout mutant, respectively, while average essentiality of whole reactions was 0.215 and 0.216 under respective condition.
In (15), c ikq is the qth element of C ik which has the essentiality metric as begin{array}{*{20}l} varepsilon_{ikq}=mathop{q{mathrm th}max} _{stackrel{scriptstyle j in {mathrm V}_{mathrm node}} {j ne i, j ne k}} left{M_{i,j,k}^{smp}right}- mathop{(q+1){mathrm th}max} _{stackrel{scriptstyle j in {mathrm V}_{mathrm node}} {j ne i, j ne k}} left{M_{i,j,k}^{smp}right} end{array} (16).
Essentiality Undiscovered Metabolites (EUM): The metabolites whose essentiality have not been discovered.
However, for the vast majority of infectious organisms, high-throughput experimental interrogation of essentiality is currently not possible, and efforts to define essentiality have been based on bioinformatic predictions [ 59- 63].
The categories "UM", "FEM", "EUM" respectively represent the universal metabolites, the functional essential metabolites and the metabolites whose essentiality have not been discovered.
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