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Therefore, the number of significant transcription factors markedly peaked at 5 days post-ablation, where there was more than twice the number of transcription factors differentially expressed compared to any other time point.
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All of the chosen datasets reported genes differentially expressed compared to a normal reference except for Tothill et al. [16].
Although we did not perform quantitative assessment of the expression level for each Rho protein, some Rho species appear to be less expressed compared to the expression level of E. coli Rho.
Whereas cyclin D1 expression returned to control level after 48 hours, the expression of Cdc25A was still over expressed compared to control.
Enrichment analysis on the 10 clusters shown in Figure 2 failed to identify any GO terms that were differentially expressed compared to both the complete (10,162 features) and sex-biased (883 features) datasets.
As the genes associated with SEs are highly expressed, compared to genes associated with TEs17,18,19.
These genes associated with SEs were significantly highly expressed, compared to genes associated with TEs (p-value < 2.2e-16 2.2e-16on rank sum test) (Fig. 6g).
The genes associated with the Smad3 defined SEs are significantly expressed, compared to the TEs (p-value < 2.2e-16 2.2e-16on rank sum test) (Fig. 7e).
In 4T1 tumor cells, CDH1 was highly expressed compared to 168FARN or 4T07 cells (Additional file 1).
It should also be kept in mind that Rab4a is weakly expressed compared to Rab4b in adipocyte.
Although optimized for E.coli, some human genes were still poorly expressed compared to their respective wildtype counterparts.
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