Note that anther samples contain meiocytes, which likely contributes to the small number of differentially expressed genes (both up- and down-regulated) between anthers and meiocytes; substantially more differentially expressed genes were found between anthers or meiocytes vs. seedlings.
Both the 8 h conditions had substantially more differentially expressed transcripts as was to be expected, and the DAOY 8 h comparison yielded 4.5x as many differentially expressed transcripts as the U87 mg 8 h comparison.
Meanwhile, Milne et al. found that SbSUT1 was substantially more highly expressed in source leaves and modestly higher in mature internodes of grain vs. sweet sorghum, whereas SbSUT2 was not differentially expressed in source leaves and was hardly expressed in mature internodes.
Recent comparisons between separate spot detection and using a consensus spot pattern (Eravci et al. 2007) show that the latter approach is able to find substantially more differentially expressed proteins, in a much shorter time.
Interestingly, three additional, putative enterotoxin genes are found on G9241's pBC218 plasmid (pBC218_0039, 0040 and 0042) (Table 2) and, unlike the chromosomally encoded toxins, they are substantially more highly expressed in CO2 (42, 75 and 24 fold difference, respectively).
Interestingly, substantially more differentially expressed genes were identified by RNA-Seq analysis than with the Affymetrix microarrays.
The numbers varied dramatically among the four cutoff levels as expected, but importantly, in all cases, the heterotic hybrids (H12 and H13) showed substantially more nonadditively expressed probe sets than the non-heterotic hybrid.
However, since Bcl-x L is substantially more highly expressed in the brain (Krajewska et al., 2002), the brain-specific deletion of Bcl-x is expected to affect the Bcl-x L isoform nearly exclusively.
When comparing the transcriptomes identified in this study using RNA-seq (CjFur, CjPerR and iron) to those identified using microarray profiling the most obvious observation is that the RNA-seq identified substantially more differentially expressed genes as compared to the microarray profiling (Fig. 6).
We note that female-biased genes are also more expressed in other tissues than male-biased genes [ 1, 37], a result that could substantially account for the trend found by Mihaylova and Nurminsky [ 32].
