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The next level of clustering was defined by the microarray platform used for the studies.
Probes and hybridizations were performed by the Microarray platform of the IGBMC and Génopole Alsace-Lorraine (http://www-microarrays.u-strasbg.fr).fr
Overall over 90 percent of the miRNA microarray results tested were validated by qPCR, confirming the integrity of the data generated by the microarray platform.
In addition, real-time kinetic PCR analysis of selected genes also verified the differential regulation as identified by the microarray platform.
Overall, these findings imply the global transcriptional readout in the transfected C2C12 cells described by the microarray platform can be attributed to the impact of the transfection of the Rnf14 variants.
The well-known hypoxia responsive miR-210-3p miR-210-3p miR-210-3p detecouldby the microarray platform most likely for technotal reasons, however, its upregulation upon hypoxic stress was apparent be qPCreliably
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Solexa/Illumina deep sequencing has the highest overall power followed by the microarray platforms Agilent and Affymetrix.
So the largest effects found in the low-intensity range in this study are duly detected by Solexa/Illumina, but missed by the microarray platforms.
For this purpose, sequences of unigenes that were represented by the microarray platforms were used to blast against sequences of a potato unigene database (i.e. TIGR consensus build of potato, version 10.0).
In other words, only pathways represented by the genes on the microarray platform were used for the bioinformatics analysis.
IGF2 was represented by 12 probes in the microarray platform and 6 probes were differentially expressed across experiments.
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