The KEGG term of "pathways in cancer" was commonly seen in the analysis of all of the 3 groups of target genes.
Another work inferred overlapping regulators of NDs in different organisms [ 13], the direct commonality among NDs in term of pathways [ 14], or the reconstruction of the NDs network based on PPI networks, regulatory networks, and Boolean networks [ 15].
It has received the greatest attention in terms of pathway characterization and industrial-scale production.
Thus in terms of pathway space a synthetic lethality screen performed by SGA yields close and distant genetic interaction partners of a given query gene.
In terms of pathway data integration, IntPath not only looks for related pathways between databases but also within each source database; this integration approach provides more unified, meaningful and comprehensive integrated pathway-gene and pathway-gene pair relationships information.
Groups is available as part of the Pathway Tools software, and is subject to the licensing terms of Pathway Tools: the software is freely available to academic users including source code, and is available for a fee to commercial users.
When tailored to the specific case of IFN-EGF chimera using parameter values from ref. 14, our model quantitatively reproduces the experimental results of the different chimeric constructs in terms of pathway activation and cytotoxic potential.
Metabolite concentration is the net result of its rates of formation and removal, and, without additional information, it is not appropriate to interpret changes in concentration in terms of pathway flux.
As genome annotation continues to improve, and it is possible to characterize more and more genes in terms of pathway length, we look forward to explicit tests of the three-step model we propose.
This may partly explain, in terms of pathway fluxes theory, the differences in levels of selective constraints upon upstream and downstream genes observed in earlier studies [ 9, 11, 13, 15].
