In addition to determining the rank order of highly expressed miRNAs, we also examined expression differences between nodular and infiltrative tumors.
In addition to using the normalized intensity values to identify differentially expressed genes, we also used intensity values to determine which TFs were detectably expressed at any given time point, irrespective of any fold-change.
Within the group of 2,000 highest expressed genes we also looked in each case, total RNA and aRNA experiments, at the 500 highest differentially expressed genes.
Except for establishing the expression conditions for BVMOs that could not be expressed before, we also identified two new BVMO genes (BVMO8 and BVMO24).
Among the most highly expressed genes we also detected sequences that could be involved in thiamine biosynthesis, similar to the NMT1 and THI4 proteins respectively.
Assuming there are false positives among the differentially expressed genes, we also used Benjamini and Hochberg false discovery rate (FDR) controlling approach [ 19].
For each of the lists of differentially expressed transcripts we also carried out a blastx analysis against the insect innate immunity database (IIID) [ 77].
Because IPEC-1 cells express CCL25, we also assessed the expression of Cdx-1 and -2 transcription factors which has been shown to regulate CCL25 transcription [57].
Interestingly, in addition to PA accumulation in seeds of the Tc-MYBPA expressing plants, we also observed an obvious increase of anthocyanidin accumulation in hypocotyls.
Although the transgene primarily was expressed in PCs, we also observed ectopic expression in Golgi cells that were innervated by the PFs.
While we designed this experiment to test RVG-9r LSPC-mediated PrP siRNA delivery to PrPC-expressing neurons, we also observed a significant decrease in PrPC expression on CNS cells after just 24 hours post treatment.
