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Further support for DTKR expression in renal tubules is from gene microarray data (see FlyAtlas [34]).
A large number of methods have been introduced to generate biomarkers from available molecular information (in particular from gene expression microarray data – see [1], [2], [3], [4] for reviews).
Based on the network, sox-2 plays a role in the regulation of Dppa5 [44], Alpha crystallin B [45] and P-cadherin [46], and this is consistent with the microarray data (see Figure 3 and Table S3).
These data confirmed the results from the microarray data (see Additional file 5: Figure S4).
Time series analysis is a regression analysis of time course microarray data (see Additional File 3).
In addition, several filtration criteria were followed to analyze microarray data (see Methods).
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We now briefly discuss the four major trends in the microarray data seen in the K-means clustering analysis (Figure 2d), which will allow us to explore the major themes within an enormous amount expression data.
To evaluate this possibility, we characterized each mouse phenotype using a microarray-based immunophenotyping algorithm, which estimates overall inflammation intensity and also identifies leukocyte subsets underlying an inflammation signature within microarray data (Figure 9) [31] (see also Haider et al. [37] for a similar approach).
Eight of the 133 species have publicly available microarray expression data (see Materials and Methods).
The microarray expression data (see Additional file 1), validated by means of qRT-PCR on 29 randomly selected genes, showed a Pearson correlation coefficient ranging, in the four comparisons, from 0.79 to 0.84 (see Additional file 2).
To probe transcriptional regulation of the AtSRO gene family, we mined publicly available Affymetrix microarray chip data (see Methods; AtSRO3 and AtSRO4 are not represented on the Affymetrix arrays).
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