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Since each study ultimately results in a list containing dozens or hundreds of gene candidates, it is essential to leverage existing biological knowledge through understanding the representation of known pathways or complexes within these datasets.
We also used the shortest path length observed between human proteins as an unbiased measure of functional relationships as observed within molecular pathways or complexes of proteins.
Other components of these pathways or complexes were not identified as SC according to our cutoff criteria in the SGA screen (Table 1).
In unstressed cells, the mRNA granules appear associated with active translation; this might enable a coregulation of protein expression from the same pathways or complexes.
And third, the vast majority of positive genetic interactions occur between genes encoding proteins in different pathways or complexes rather than the same [ 5, 12].
All nodes in those pathways mainly correspond to proteins, small molecules, other referenced pathways or complexes and are encoded as entries in KGML.
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Network visualization aims to organize the complex network structures in a way that provides the user with readily apparent insights into the most interesting biological patterns and relationships within the data, such as components of biological pathways, processes or complexes, which can be further investigated by follow-up computational and/or experimental analyses [ 4- 6, 9, 10].
During evolution, functionally linked proteins tend to be either preserved collectively, thus ensuring that the pathway or complex remains fully functional, or eliminated all together in a new species [2].
Each module corresponds to a different functional pathway or complex.
Deletion of one gene causes dysfunction of the entire pathway or complex such that deletion of a second gene in the same pathway or complex has no further consequence.
mp-S319 is a hypomorph allele and as such can also be enhanced by mutations that act in the same pathway (or complex).
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