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Of these, five were actually anti-correlated (decreased in abundance at the mRNA level based on microarray experiments, but increased at the protein level; see Figure 1C).
To identify those paths relevant to our model system of interest, coexpression data based on microarray experiments from the ApcMin/+ mouse small intestinal epithelium were obtained from the Gene Expression Omnibus (series GSE422 [17]); this study used laser-capture microdissection to sample the crypts of adenomas, carcinomas, and normal epithelium.
The expression data based on microarray experiments belong to three datasets: DeGregorio2001, Arbeitman2002, and Spellman2002.
Based on microarray experiments, Zhang et al.[ 35] identified the responses of numerous genes to sulfur depletion.
Figure 2 shows an outline of the pipeline for the classification of promoter sequences based on microarray experiments (cf. Section 3.2).
One of them is an indirect effect, four are proposed based on microarray experiments, and four have not been curated in the database.
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In course of probe design for DNA microarray development, each of the markers yielded a high number of potentially species-specific probes in silico, although many of them were rejected based on microarray hybridisation experiments.
This assumed relationship is the basis for numerous transcript-profiling experiments, often based on microarray analysis to identify genes that are up- and down-regulated under normal or disease conditions.
The fundamental idea of recent studies on drug resistance has been to categorize cell lines into sensitive, resistant and intermediate groups based on drug dose response experiments and subsequently to generate a genetic classifier or signature based on microarray analysis.
The transcriptional networks based on microarray data, protein-protein interaction networks based on high-throughput yeast two-hybrid type of experiments and metabolic networks based on reaction annotation of the individual proteins coded by the genome are some examples.
Based on microarray data (Supplementary Table S3), we have selected miRNA-1260b as a potential onco-miRNA whose expression was downregulated by genistein for further experiments in this study.
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