One step further, we compared the pathways represented by different published prognostic gene signatures with the over-represented pathways associated with metastatic capability.
Crustaceans bear multiple parallel chemosensory pathways represented by different populations of unimodal chemosensory and bimodal chemo- and mechanosensory sensilla on the mouthparts, the walking limbs and primarily on their two pairs of antennae.
Open image in new window Figure 2 Effects of exogenous fructose on the core metabolism of P. citrinum W1. (A) The enriched metabolic pathways represented by the metabolites present in both test conditions (5 mmol/L and 10 mmol/L fructose).
The canonical pathways represented by these proteins were liver X receptor/retinoid X receptor (LXR/RXR) and farnesoid X receptor (FXR)/RXR activation, clathrin-mediated endocytosis signaling, atherosclerosis signaling, IL-12 signaling and production in macrophages, nitric oxide and reactive oxygen species production in macrophages, and complement system signaling.
Only GO terms and KEGG pathways represented by 50 or more microarray cDNAs were included.
Furthermore, Pathway Express (http://vortex.cs.wayne.edu/ontoexpress) was used to identify relevant pathways represented by the differentially regulated gene set.
GO pathways represented by genes up-regulated by IFN-β+APAP treatment were identical to the IFN-treatment group.
Pathway mapping of clustered consensus sequences through the KEGG KAAS resulted in a total of 215 pathways represented by our consensus sequence set.
Regardless, the pathways represented by the P. carinii transcripts provide us with the first insights of the metabolism of these fungal organisms residing in the host lung.
The direct down-regulation of LRF, with the consequent induction of p19ARF, is a key mediator of the process, but the cooperation with other pathways, represented by E2F1 down-regulation and p16 up-regulation, appears to contribute.
In particular, we have found that a large portion of the central cellular metabolism consists of multiple pathways represented by genes with strongly similar phyletic vectors, so that a probabilistic model of one pathway was not able to distinguish between this pathway and other subsystems.
