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The mutual information value could be estimated accurately only when the number of microarray profiles is larger than one hundred [ 20].
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It was not possible to directly determine how similarity to post-vaccine microarray profiles was acquired in GBM samples from non-vaccinated patients treated at other institutions.
As shown, the regulation of miR-1 (Figure 1A) and miR-124 (Figure 1B) in their transfection microarray profiles are both detected by our method.
Significant heterogeneity of VAP microarray profiles was observed secondary to patient ethnicity, age, and gender, yet 85 genes were identified with consistent changes in abundance during the seven days bracketing the diagnosis of VAP.
Microarray profiles are stored as CEL files.
Those candidate miRNAs whose expression was consistent with the microarray profiles were selected for further analysis.
Baseline microarray profiles were generated using Agilent 60-mer oligonucleotide arrays for each cell line.
Second, each group of microarray profiles was normalized by using the invariant set method [ 9].
Finally, the normalized microarray profiles were integrated into a single dataset after outlier array exclusion and global median transformation.
RNA was isolated, and the microarray profiles were analyzed for differential gene expression at a 5% False Discovery Rate (FDR) [ 22].
Two gene lists: putative target genes of regulated miRNAs and differential genes from the mRNA microarray profiles were uploaded into the IPA tool for pathway mapping.
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