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Quantitative real-time polymerase chain reaction (qRT-PCR) is a flexible and scalable method for analyzing transcript abundance that can be used at a single gene or high-throughput (> 100 genes) level.
Analysis was performed with the default settings in StarNet, which includes interrogating the genecentric distribution, and networks are drawn with the highest 5 correlations from the gene of interest (level 1) and the highest 5 correlations for each of those genes (level 2).
The function relevance at the paired genes level as the driving force for the preservation of bidirectional promoters was excluded.
Table S1 Raw data of gene results: Summary of genes level 2 by z test of 1 signal ANOVA.
Usually, the global expression changes of genes in a disease may introduce great uncertainty to the findings at the individual genes level.
After filtering out for background and low expressed genes (level < 100 for a gene target across all samples), data were imported into GeneSpring (Agilent, Santa Clara, CA, U.S.A).
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Null resampling experiment at the gene level.
Mapped reads were quantified at the gene level with "HtSeq".
Five trials are simulated for each downsampled gene level.
Tab 1 contains positive selection summaries at the gene level.
Differences in gene expression were analyzed at the individual gene level.
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