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A previous 4C assay, based on microarray measurement of amplified 3C products, suggested that interchromosomal interactions did not contribute significantly to the nuclear microenvironment of the β-globin locus [23].
Our measurement of the large-scale organization of gene expression levels is associated with biological differences between the brains of animals separated by behavior or by postnatal experience, nonetheless, it is possible that a biological property of the brains influences the microarray measurement of gene expression levels but does not influence actual gene expression levels.
Microarray measurement of ANXA10 mRNA expression was successfully validated by RT qPCR (Pearson correlation: 0.9; data not shown).
This study represents the largest number of NAF samples sequenced, and the first application of DNA microarray measurement of the mutation load in NAF.
For the SNPs that were selected in common between genotype and DNA methylation, we used the one-sided t-test that rejects the null hypothesis that the microarray measurement of genotype is as large as the DNA methylation value in favor of the microarray measurement of genotype is more than the DNA methylation value.
The microarray measurement of gene expression in zebrafish, which are phylogenetically distant from turbot, indicates that this multispecies microarray will be useful for measuring endocrine responses in other fish.
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Technical validation of microarray measurements of gene expression was done with qRT-PCR and has been reported [34].
When microarray measurements of differential expression are compared to qPCR, it is well known that microarrays provide a smaller dynamic range [3].
To date, the main sources of such data are microarray measurements of genome-wide expression profiles, with over 400,000 profiles stored in GEO [1] alone as of April 2010.
The discrepancy between qPCR and microarray measurements of IL-1β transcript levels was likely to be due to high signal values observed in resting monocytes for the 2 IL1B probe sets in microarray analysis (Figure 4).
This resulted in a dataset of 72 microarray measurements of 25,280 genes.
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