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Lack of Ly-6G expression in all macrophage preparations used in this study was confirmed by gene array data (data not shown).
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In contrast, in a recent study, other investigators speculated about the role of SIRT3 in head and neck cancer by reviewing published gene array data from another source and observed that SIRT3 levels are decreased in head and neck cancer.
First, we analyzed the gene array data by principal component analysis (PCA) that clusters data sets according to their degree of correlation (Fig. 2A and Video S1).
Northern and Western blot analyses confirmed gene array data, by showing a decrease in VEGF mRNA in A172 cells, and the corresponding protein in A172, U87MG and U373MG cells treated with TRAIL.
The gene array data were analyzed by Agilent Bioanalyzer and intensity files obtained by Affymetrix MAS program were normalized by dChip.
Gene array data was validated by qRT-PCR using Taqman Assay-On-Demand oligonucleotides for the following genes (Table 6).
In order to identify genes that were differentially affected by 4OHT treatment in the HUVEC-K13-ERTAM, the gene array data was uploaded to Array Assist® gene expression software.
Functional analysis of gene array data set.
DS contributed to the analysis of gene array data.
Meis2 and Meis3 could not be detected either by gene array or Q-RT-PCR (data not shown).
Analysis of data generated by gene array analysis, determination of intrahepatic cellular origin of transcript expression, and studies of intrahepatic gene expression using gene array analysis are also reviewed.
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