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Nine gill samples from each condition and sampling point, including the five replicates analysed by microarray, were analysed by qPCR.
The expression profiles of 8 genes, belonging to various functional categories and showing various expression patterns in the microarray, were analysed by qRT-PCR under the same conditions as those of the microarray experiment (Additional file 7).
In the present study, 280 clinically well-defined HNSCCs biopsies mounted on a tissue microarray were analysed for copy number changes of CCNL1, SNO, PIK3CA and TP73L by fluorescence in situ hybridisation (FISH).
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The resulting visualized microarray is analysed on a computer guided reader with automated reading software.
Scanned microarrays were analysed using Array-Pro Analyser (MediaCybernetics, USA) and presented as heat maps in which colour intensity was correlated to mean spot signals.
In total 20 microarrays were analysed.
2 microarrays were analysed per strain.
Microarrays were analysed by laser scanning (Hewlett-Packard Gene Scanner).
Two independent cohorts of breast cancer specimens arranged on two different tissue microarrays were analysed for SERBP1 expression by immunohistochemistry.
A selection of 12 genes that showed stable expression across the microarrays were analysed further by QRT-PCR (Genes 1-12; Table 2).
The genome-wide gene expression profiles determined on Affymetrix microarrays were analysed to detect potential cis-acting elements which may underlie the effects of alcohol.
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