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MeSH Review

Systems Biology

 
 
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High impact information on Systems Biology

  • Computational modeling of the EGF-receptor system: a paradigm for systems biology [1].
  • Strain improvement by metabolic engineering: lysine production as a case study for systems biology [2].
  • By detailing the global NO metrics of a unique coxib bearing a popular NO-donor pharmacophore (i.e., a nitrate moiety) and defining some critical mechanistic determinants, this study demonstrates how NObonomics can serve as valuable tool in helping elucidate NO systems biology and the effect of NO-donor and non-NO-donating therapeutics thereon [3].
  • The target gene and protein expression patterns of VDR, PPARs, and PXR; the resulting changes in metabolite levels; and their physiological consequences create a network that can be monitored by high-throughput methods and analyzed by multimodal approaches, such as systems biology [4].
  • When kinases meet mathematics: the systems biology of MAPK signalling [5].
 

Biological context of Systems Biology

 

Associations of Systems Biology with chemical compounds

  • Cytomics, the human cytome project and systems biology: top-down resolution of the molecular biocomplexity of organisms by single cell analysis [8].
  • An integrated omics approach was undertaken in order to elucidate a systems biology level understanding of the acute hepatotoxcity of valproic acid (VPA) [9].
  • Galactose utilization in yeast, and sea urchin development are two examples of emerging systems biology [10].
  • BACKGROUND: DopaNet http://www.dopanet.org is a Systems Biology initiative that aims to investigate precisely and quantitatively all the aspects of neurotransmission in a specific neuronal system, the mesotelencephalic dopamine system [11].
 

Gene context of Systems Biology

  • Over the last decade, epidermal growth factor (EGF) signaling has been used repeatedly as a test-bed for pioneering computational systems biology [12].
  • Then we used a systems biology approach to analyze expression patterns in biochemical pathways and networks to isolate systems involved in hypertension pathology in both SHR and BPH [13].

References

  1. Computational modeling of the EGF-receptor system: a paradigm for systems biology. Wiley, H.S., Shvartsman, S.Y., Lauffenburger, D.A. Trends Cell Biol. (2003) [Pubmed]
  2. Strain improvement by metabolic engineering: lysine production as a case study for systems biology. Koffas, M., Stephanopoulos, G. Curr. Opin. Biotechnol. (2005) [Pubmed]
  3. Selective nitros(yl)ation induced in vivo by a nitric oxide-donating cyclooxygenase-2 inhibitor: a NObonomic analysis. Dhawan, V., Schwalb, D.J., Shumway, M.J., Warren, M.C., Wexler, R.S., Zemtseva, I.S., Zifcak, B.M., Janero, D.R. Free Radic. Biol. Med. (2005) [Pubmed]
  4. An integrated biological approach to nuclear receptor signaling in physiological control and disease. Carlberg, C., Dunlop, T.W. Crit. Rev. Eukaryot. Gene Expr. (2006) [Pubmed]
  5. When kinases meet mathematics: the systems biology of MAPK signalling. Kolch, W., Calder, M., Gilbert, D. FEBS Lett. (2005) [Pubmed]
  6. A systems biology approach for the study of cumulative oncogenes with applications to the MAPK signal transduction pathway. Pant, D.K., Ghosh, A. Biophys. Chem. (2006) [Pubmed]
  7. Role of E2F1 in apoptosis: a case study in feedback loops. Knezevic, D., Brash, D.E. Cell Cycle (2004) [Pubmed]
  8. Cytomics, the human cytome project and systems biology: top-down resolution of the molecular biocomplexity of organisms by single cell analysis. Valet, G. Cell Prolif. (2005) [Pubmed]
  9. An integrated study of acute effects of valproic acid in the liver using metabonomics, proteomics, and transcriptomics platforms. Schnackenberg, L.K., Jones, R.C., Thyparambil, S., Taylor, J.T., Han, T., Tong, W., Hansen, D.K., Fuscoe, J.C., Edmondson, R.D., Beger, R.D., Dragan, Y.P. OMICS (2006) [Pubmed]
  10. From functional genomics to systems biology: concepts and practices. Auffray, C., Imbeaud, S., Roux-Rouquié, M., Hood, L. C. R. Biol. (2003) [Pubmed]
  11. The Molecular Pages of the mesotelencephalic dopamine consortium (DopaNet). Le Novère, N., Donizelli, M. BMC Bioinformatics (2004) [Pubmed]
  12. Current challenges in quantitative modeling of epidermal growth factor signaling. Breitling, R., Hoeller, D. FEBS Lett. (2005) [Pubmed]
  13. Common genetic mechanisms of blood pressure elevation in two independent rodent models of human essential hypertension. Friese, R.S., Mahboubi, P., Mahapatra, N.R., Mahata, S.K., Schork, N.J., Schmid-Schönbein, G.W., O'Connor, D.T. Am. J. Hypertens. (2005) [Pubmed]
 
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