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This seems an unwarranted assumption, particularly when comparing polyploids and diploids, because transcriptome sizes are likely to differ due to genome-wide differences in gene dosage.
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Thus, a method to estimate relative transcriptome sizes is needed for determining expression differences per cell based on transcriptome-normalized expression profiling data.
Our estimates of transcriptome size are not, therefore, skewed by differences in endopolyploidy.
Once an estimate of transcriptome size was obtained, estimates of dosage response could then be made for each gene in the transcriptome profiling data set.
Therefore, transcriptome size was assumed to be similar to that of rice, which is also a monocot species.
While this question is not resolvable with the current data set, the comparison of the sting gland transcriptome size to that of the whole abdomen transcriptome size is more straightforward.
The largest transcriptome size was obtained from the gills, followed by the hepatopancreas, and then the adductor muscle.
However, the transcriptome size is affected by both gene number and abundance, and varies markedly among species.
The (mRNA) transcriptome size was then defined as the total number of nucleotides comprised by the 60,000 mRNA molecules.
The whole transcriptome size was 49.5 Mb, and the N50 size was 760 bp, with 10,856 sequences longer than 1 kb.
This novel versatility of the AFLP methodology - estimating cDNA pool size - should be particularly useful for any study in which knowledge of the underlying transcriptome size is critical.
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