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Gene expression levels were log-transformed because gene expression levels do not follow a normal distribution.
Because gene expression levels were measured in total adipose tissue, we confirmed the cell specificity of the M2-markers with immunostaining in a random selection of the available postmortem biopsies.
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Our data also support this idea because COL1A1 gene expression levels of pathologically cirrhotic 25 noncancerous liver tissues are significantly higher than those in 23 noncirrhotic liver tissues (P = 0.010).
The immune system of H. virescens females also seemed more specific than that of males, because immune gene expression levels differed more between wounding and bacterial challenge in females than in males (Fig. 1).
Finally, the PI cannot be standardized across different microarray platforms, because the gene expression levels in microarray assay were measured by arbitrary fluorescent intensities rather than transcript copy numbers.
Despite this concerted induction during carbon starvation, it is clearly evident from the expression data that autophagic processes also play an important role during exponential growth, because atg gene expression levels ranged from 0.6%atg1212: An11g06920) to 24% (atg8: An07g10020) when compared with the actin gene expression level (Table 1).
Such features will be removed when using t-test or t-test like methods because they average gene expression levels in all the studied samples.
This is either due to the absence of certain isoforms in a specific tissue, hepatocytes in this case, or because the overall gene expression levels are too low to be detected given a specific sequencing coverage.
Because changes in gene expression levels of transcription factors frequently do not correlate with changes in their regulatory activities, to further identify transcription factors with perturbed regulatory activities under alkane exposure, we analyzed our transcriptome data using Network Component Analysis (NCA).
Because lipids/metabolites and gene expression levels were not co-regulated at the one-step level, we next sought to refine the correlation analysis using the following three parallel and independent approaches: co-regulated gene neighborhoods; co-regulated pathway neighborhoods; and TF-regulated modules.
The 1032A/A subjects required more analgesics, probably because of lower KCNJ6 gene expression levels and consequently insufficient analgesic effects.
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