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

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

With the increase of platforms biology as an process in biochemistry study, utilizing excessive throughput thoughts akin to mass spectrometry to generate metabolic profiles of melanoma metabolism is changing into more and more renowned. There are examples of melanoma metabolic profiling reports within the educational literature; although they can be in basic terms in journals particular to the metabolomics neighborhood. This publication may be rather valuable for post-graduate scholars and post-doctoral researchers utilizing this pioneering means of network-based correlation research. The process might be tailored to the research of any huge scale metabolic profiling scan to respond to quite a number organic questions in a number species or for quite a number diseases.

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Extra resources for Correlation-based network analysis of cancer metabolism: A new systems biology approach in metabolomics

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The relationships between metabolites were linear in nature and the biological replicate size was moderate ( n = 30) for each experimental group. The data were therefore deemed suitable for Pearson’s product-moment correlation analysis. 1 Correlation Analysis A total of 42 metabolite peaks were identified in HCT 116 WT and DN cells exposed to normoxia, hypoxia or anoxia according to reporting guidelines as described by the MSI (Sumner et al. 2007) that were deemed to be reproducible as measured in the QC samples.

More than half of the differences in correlations between WT and DN cells in hypoxia involved this peak. 073) represented in blue. 4. Moreover, it is important to highlight that some assumptions must be made that may or may not be biologically correct, for example when mapping correlations concerning the scyllo/myo-inositol peak as just myo-inositol. Nevertheless many correlations could be mapped onto the network and pathways visualised for different sub-networks as discussed below. Using this technique it is possible to visualise inter-connecting pathways regulated by each cell type under each oxygen tension and identify similarities and differences between sub-networks with respect to the pathways involved and the metabolites that appear to be “hubs”.

This was done to assess how cells coped with a deficiency in HIF-1 at each oxygen level in isolation. 5. 2 Network-Based Correlation Analysis of HIF-1 Metabolism 43 Xylitol/Ribitol WT 1 % vs. 06 Tyramine/Tyrosine Fig. 4 Pearson’s product-moment correlation between tyramine/tyrosine and xylitol/ribitol in HCT 116 cells exposed to hypoxia (1 %). The log transformed gas chromatography (GC) peak areas are plotted for these two metabolites where WT samples are shown in red squares and DN samples in blue diamonds.

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