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We identified 21 pathways that display evidence of gene clustering in at least one Candida species (Table 4 and Additional file 4).
Using this approach we identified functions and pathways that display similar behavior and/or regulation including the well-studied impact on the interferon response and the inflammasome.
Thus, phylogenomic analysis indicates that these different organisms harbor pathways that display a mixture of features of the three canonical pathways from fungi, vertebrates, and land plants.
The basic aim here is to identify those gene sets (i.e., pathways) that display enrichment for―or over-representation of― genes whose expression is substantially altered in the phenotype being investigated.
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Thus, TNF-A may interact in important ways with multiple cytokine/chemokines involved in inflammation pathways that also display genetic variation.
At any time, the Pathway Graphical Editor can be called using one (or all) of the pathways that are being displayed in the Pathway Graphical Viewer.
Specifically, our application allows neuroscientists to place and interactively manipulate box-shaped regions (or volumes of interest) to selectively display pathways that pass through specc anatomical areas.
In total we identified 62 pathways; 33-444 per species) that display some evidence of gene clustering (Table 5).
By right-clicking on a gene, all pathways that also contain this gene are displayed.
Human cancers frequently display abnormalities in signaling pathways that regulate cell proliferation and survival.
Cancer cells display multiple defects in cellular pathways that govern normal cellular proliferation and homeostasis.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com