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The sensitivity of the microarray platform used here has allowed us to monitor miRNA from a small volume of serum and to classify sera as either from normal donors or from cancer patients.
This discrepancy arises due to the difference in microarray platform used.
The next level of clustering was defined by the microarray platform used for the studies.
The microarray platform used was a printed 19 K oligonucleotide set (18,861 oligonucleotides representing 18,664 unique sequences) from Sigma-Genosys, Cambridge, UK).
We selected to also analyze the NCBI GEO GSE593 ULM profiling along with the data from this study due to the same sample size, patient age and the microarray platform used [21].
More importantly, a comparison of our data with microarray data from the tko fly line with a mutation in the mitochondrial protein S12 [38] revealed that a subset (∼15%) of genes affected in the U6atac mutant are also affected in the tko line despite the differences in developmental stage (adult vs. larvae) or different microarray platform used.
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In this study, we developed an oligo microarray platform using all available I. multifiliis expressed sequence tag (EST) information as well as probes designed through comparative genomics to other protozoa.
The expression patterns of these genes were validated in a different microarray platform using material from three different hematopoietic progenitor and stem cell experiments.
Affymetrix GeneChips are a popular oligonucleotide microarray platform, using probe sets formed by 11-20 pairs of 25 mer probes.
The majority of the studies reported to date have utilised the DNA microarray platform using both oligonucleotide and cDNA formats.
While this microarray platform uses competitive hybridization, the two channels in our Agilent microarray have been shown to be relatively independent as saturation in either channel is very rare [ 28].
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