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In particular, two drugs having significantly differentiated gene expression changes, where a number of specific genes in the same direction (up or down) will have a synergistic effect.
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To investigate possible roles of IKAP during neuronal differentiation, we compared gene expression changes in IKAP-DR and control cells in differentiated versus non-differentiated conditions.
We find that the transition from embryonic stem cells to differentiated neurons indeed involves gene expression changes that are hallmarks of EMT such as classical cadherin switch (Fig 7A).
It is a recognized problem that gene expression based classifiers do not perform well on poorly differentiated tumor samples, presumably because differentiation is driven by gene expression changes.
This work was aimed at evaluating the robustness of microarray technologies and the suitability of the highly differentiated human HepaRG cell line in the investigation of gene expression changes induced by a toxic compound in human liver.
The expression levels of these genes gradually increased as ES cells differentiated into each lineage (see Supplementary data for examples of gene expression changes).
In parallel, we have also characterized the experimental and control FRTL5-FLAG pools with respect to the differentiated gene expression profile of the FRTL-5 parental cell line and no significant changes were observed (Supplementary Figure 1b).
A global view of the coordination of growth rate with transcriptional changes as presented here illustrates a vivid picture of the differentiated gene expression balance in sustaining life under diverse habitats.
The highly variable and differentiated gene expression patterns may explain the great extent of structural differentiation observed in complex organisms.
Where RNA expression was studied from vehicle or PMA-treated V-K562 or B-K562 cells (independently prepared triplicates), a list of significant gene expression changes was generated by filtering for the ANOVA interaction (q-value<0.05) and fold change between differentiated B-K562 compared with V-K562>±2 V-K562>±2
And if there are changes, could they alter the laboratory conditions so those gene expression changes do not occur?
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