By a News Reporter-Staff News Editor at Information Technology Newsweekly -- New research on Bioinformatics is the subject of a report. According to news reporting originating in Uxbridge, United Kingdom, by VerticalNews journalists, research stated, "Pathway analysis tools are a powerful strategy to analyze 'omics' data in the field of systems biology. From a metabolic perspective, several pathway definitions can be found in the literature, each one appropriate for a particular study."
The news reporters obtained a quote from the research from Brunel University, "Recently, a novel pathway concept termed carbon flux paths (CFPs) was introduced and benchmarked against existing approaches, showing a clear advantage for finding linear pathways from a given source to target metabolite. CFPs are simple paths in a metabolite-metabolite graph that satisfy typical constraints in stoichiometric models: mass balancing and thermodynamics (irreversibility). In addition, CFPs guarantee carbon exchange in each of their intermediate steps, but not between the source and the target metabolites and consequently false positive solutions may arise. These pathways often lack biological interest, particularly when studying biosynthetic or degradation routes of a metabolite. To overcome this issue, we amend the formulation in CFP, so as to account for atomic fate information. This approach is termed atomic CFP (aCFP). By means of a side-by-side comparison in a medium scale metabolic network in Escherichia Coli, we show that aCFP provides more biologically relevant pathways than CFP, because canonical pathways are more easily recovered, which reflects the benefits of removing false positives. In addition, we demonstrate that aCFP can be successfully applied to genome-scale metabolic networks."
According to the news reporters, the research concluded: "As the quality of genome-scale atomic reconstruction is improved, methods such as the one presented here will undoubtedly be of value to interpret 'omics' data."
For more information on this research see: Refining carbon flux paths using atomic trace data. Bioinformatics, 2014;30(7):975-980. Bioinformatics can be contacted at: Oxford Univ Press, Great Clarendon St, Oxford OX2 6DP, England. (Oxford University Press - www.oup.com/; Bioinformatics - bioinformatics.oxfordjournals.org)
Our news correspondents report that additional information may be obtained by contacting J. Pey, Brunel University, Uxbridge UB8 3PH, Middx, United Kingdom. Additional authors for this research include F.J. Planes and J.E. Beasley.
Keywords for this news article include: Europe, Uxbridge, United Kingdom, Bioinformatics
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