Analyses of 168 samples from proximal and distal adenocarcinomas using U133plus2.0 microarrays validated these findings, showing a significant two-fold (log 2) upregulation of DHHC9 transcript (P<10−6).
Using real-time PCR to validate microarray findings, we showed that mRNA levels of EGF, SHC, PKC, GRB2 and RASA genes were significantly reduced in the presence of AR knockdown, and upregulated by enhanced AR expression.
Our microarray studies (Table 6) have confirmed and extended previous findings showing decreased gene expression of MUC5AC and MMP9 after macrolide treatment.
Our microarray data were in agreement with the morphology, cytotxicity and DNA lesions findings showing that the prolonged treatment with L-OHP triggered different patterns in the transcriptional profiles of the two tested cell lines.
In fact, although Il17a was not represented in the microarray, qRT-PCR findings showed an increase in the mRNA levels (data not shown), suggesting the involvement of Th17 cells in rat TNBS colitis.
This is the first report of a genome-wide fungal gene expression analysis during mycovirus infection using a 3′ tiling microarray, and our findings show global differences in host cellular pathways in F. graminearum harboring FgV1-DK21.
The specificity of the different platforms of RNAi was also assessed through DNA microarrays, and the findings showed the successful development of siRNA reagents against the genes of interest and the useful application of vector-based RNAi to RAW 264.7 cells for functional studies.
The DNA microarray data supports this finding, showing that multiple genes involved in the N-linked glycosylation pathway are significantly down-regulated (Fig. 7), likely leading to the observed changes in mAb glycosylation as monitored by HILIC assay (Fig. 6).
Technical validation of the microarray findings by qRT PCR showed a moderately positive correlation between the two methods for SERPINE1 expression (r=0.56, P=0.77), but a poorer correlation for HEXIM1 (r=0.22, P=0.15).
Our findings show that the probe density on a microarray is critical in identifying genomic deletions and is fundamental to the success of experiments.
