Download Correlation-based network analysis of cancer metabolism: A by Emily G. Armitage, Helen L. Kotze, Kaye J. Williams (auth.) PDF

By Emily G. Armitage, Helen L. Kotze, Kaye J. Williams (auth.)

With the increase of platforms biology as an process in biochemistry learn, utilizing excessive throughput concepts similar to mass spectrometry to generate metabolic profiles of melanoma metabolism is changing into more and more well known. There are examples of melanoma metabolic profiling reports within the educational literature; even if they can be basically in journals particular to the metabolomics group. This booklet might be quite invaluable for post-graduate scholars and post-doctoral researchers utilizing this pioneering means of network-based correlation research. The technique may be tailored to the research of any huge scale metabolic profiling scan to respond to more than a few organic questions in a number of species or for a variety of diseases.

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Additionally, a correlation threshold zˆ T can be reported for a sample size N. Using the calculation described above can alleviate two restricting cases of correlation analysis. A very low threshold would produce false positives and high thresholds would give false negatives. Correlation coefficients Cij are converted to values zˆij using an inverse transform: T C = e e (2 z ) −1 T (2 z )+1 T with z T = zˆT N −3 Consequently, two metabolites are considered significantly correlated when zˆij > zˆ T .

Nat Rev Cancer 4(7):551–561. 1038/nrc1390 Griffiths JR, McSheehy PMJ, Robinson SP, Troy H, Chung YL, Leek RD, Williams KJ, Stratford IJ, Harris AL, Stubbs M (2002) Metabolic changes detected by in vivo magnetic resonance studies of HEPA-1 wild-type tumors and tumors deficient in hypoxia-inducible factor-1 beta (HIF-1 beta): evidence of an anabolic role for the HIF-1 pathway. Cancer Res 62(3):688–695 Kanehisa M, Goto S (2000) KEGG: Kyoto Encyclopedia of genes and genomes. Nucleic Acids Res 28(1):27–30.

27 Kotze H, Armitage E, Sharkey K, Allwood J, Dunn W, Williams K, Goodacre R (2013) A novel untargeted metabolomics correlation-based network analysis incorporating human metabolic reconstructions. BMC Syst Biol 7(1):107 Ma H, Zeng A-P (2003) Reconstruction of metabolic networks from genome data and analysis of their global structure for various organisms. Bioinformatics 19(2):270–277 Ma HW, Sorokin A, Mazein A, Selkov A, Selkov E, Demin O, Goryanin I (2007) The Edinburgh human metabolic network reconstruction and its functional analysis.

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