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Some gene changes may indeed indicate the cell is in its death throes.
However, since A549 cells are already transformed, we acknowledge that some gene changes may be missed by using A549 cells instead of normal lung cells.
We also identified some gene changes unique to each treatment, suggesting that there may also be some particle-specific effects.
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For some genes, changes were not significant (see asterisks in Figures).
Although c-Myb was bound to each of these target promoters after addition of beta-estradiol, the genes responded quite differently, suggesting that, at least for some genes, changes in the binding of c-Myb to the promoters was not sufficient to cause increased expression.
First, some genes change in both nonresponding and responding cases.
Additionally, in the present study some genes changed over time independent of exposure status (control or infected).
Second, some genes change in culture following oestrogen exposure/withdrawal but are relatively unaffected by letrozole treatment in primary tumours.
Indeed, whereas the expression levels of some genes change in response to a wide variety of different biological conditions, most genes were found to display stable expression levels.
Of these 112 genes, 30 were expressed in a strain-specific manner, 35 were regulated under various culture conditions, and 55 were regulated during stage conversion (some genes changed in multiple array conditions) (Additional file 2: Table S5).
We also found that the expression levels of some genes changed simultaneously in the metabolic pathways of tyrosine and leucine and that these conserved genes may modulate the function of the metabolic pathway.
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