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The same RNA was used for QRT-PCR as was used for microarray assessment.
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Leaf material was used for microarray analyses.
Genes used for microarray validation.
Total or polysomal RNA (10 µg) was used for microarrays.
For microarray assessments, triplicate samples were pooled for gene chip analyses.
Among the traditional methods used for quality assessment of microarrays, the scaling factor gave relatively good results for both human and mouse datasets.
The R package 'Linear Models for Microarray Data' (LIMMA) was used for the assessment of differential expression of individual genes between paraganglioma subgroups[ 20].
The R package 'Linear Models for Microarray Data' (LIMMA) was used for the assessment of differential expression between N0 and N+ HNSCC subgroups in the reference dataset [ 21].
Two independent batches of microarrays were used for bimodal assessment and comparison.
UHRR and HBRR have been previously used for accuracy assessment of various platforms, including microarray, targeted RNA-sequencing using multiplex-PCR amplicons [ 15] and RNA-seq [ 17, 20, 21].
The results generated by the two independent tools used for the assessment of gene expression, i.e., microarray and microfluidic card system, exhibited a high level of congruency (Spearman correlation rho = 0.81, p = 7.87e-5 7.87e-5us vanddathusthe applied methods.
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