Figure 3 illustrates pathway mapping for the Glycolysis/Gluconeogenesis pathway (KEGG pathway code: 00010) using the ORFeome of L. acidophilus NCFM [ 10] as query set and the complete KEGG database as template.
This figure not only illustrates pathway collaboration by showing their coordinating relationships, but it also shows that mutations are well distributed across the genes in each pathway, as an example of our hypothesis that any genes with functional mutations can be driver genes.
The model replicates features of real-world adoption of RG practices in the Eastern US and illustrates pathways toward greater multifunctionality in the dairy landscape.
Lines connected the rooms to illustrate pathways characters could travel.
While glycolysis and the TCA cycle illustrate pathways characterized by sequences of catalytic reactions, mammalian carbonic anhydrases (CAs) exemplify a single protein family, all the members of which catalyze the interconversion of carbon dioxide and bicarbonate [ 5].
Consistent with this hypothesis, additional networks illustrated by pathway analysis (Figure S1) for the late stage proteome highlight Notch and Dkk3, known stem cell effectors [65], [66].
We illustrate how pathway analysis of sequence-based differential expression results identified the molecular pathways perturbed in response to CYP2S1 depletion, provided insight into unexpected modes of action, and informed follow up experiments.
In addition, there are also some other pathways have been inferred, such as the arachidonic acid metabolism pathway (illustrated in Figure 5) and androgen receptor signalling pathway (illustrated in Figure 6), which are also very critical in prostate cancer progression.
To help explicit the function of the genes in each pathway, gene ontology terms were determined for all genes illustrated within the pathways generated by Pathway studio 6.0.
Figure 2 illustrates a pathway diagram with all possible transitions between states using a box and arrow design.
