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The over-expression of ZEB1 and ZEB2 was also found in the 66 surgical samples of different cases (Figure S2), although these two EMT regulators could not be extracted from expression profiles under the above stringent conditions.
A comparison of Fig. 6 and Fig. 1 shows that by constructing TF activities using a preliminary TRN, we significantly increase the amount of information extracted from expression data.
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Genes with strong positive correlation in expression with PCSK (top 5%) and strong negative correlation in expression with PCSK (bottom 5%) were extracted from the expression correlation lists for all the PCSK genes.
Another interesting property that can be extracted from gene expression data is the correlation structure of gene expression profiles between all genes.
Let x i and x j and cor(x i, x j ) be the expression profiles of the ith and jth genes extracted from the expression matrix and the Pearson correlation coefficient between them.
The gene expression data for special developmental stages in A. thaliana were extracted from whole expression data according to developmental stages of samples, as described [ 58].
To test this hypothesis the mRNA expression levels of cFLIP, XIAP, Mcl-1, Bcl-2 or Bcl-XL have been extracted from the expression profiles of 78 TRAIL-resistant celler celinesneSupplementaryary Figure 4).
We showed that the estimated neutral faces which are extracted from the expression faces are familiar with that extracted from their corresponding neutral face.
During the course of this study, other reports were published presenting analogous approaches [16], [17], which also concluded that miRNA regulation information can be extracted from gene expression data.
TA genes were extracted from the expression data.
All the modules extracted from gene expression profiling data and used in the study.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com