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Moreover, we found that the 5p arm and 3p arm miRNA derived from the same pre-miRNA have different tissue expression preferences, one preferring the normal tissue while the other preferring the tumor tissue.
Relative expression analysis was sought to determine the expression preferences of individual miRNAs between these two libraries.
In particular, CACNA1D showed expression preferences toward scale-forming embryonic epithelium.
In summary, these miRNA genes should have alternative expression preferences according to the special developmental stage and environment.
Therefore, the detected read counts by NGS may not really reflect the true miRNA's expression levels, causing biased expression preferences.
In addition, we examined tissue expression preferences of TF and TC families and identified tissue/condition-specific TFs and TCs in maize and millet.
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Moreover, although derived from the same mature miRNA, isomiRs can have different expression preference, some prefer normal tissue and the other prefer tumor tissue.
By measuring the expression ratios of 5p arm to 3p arm between tissues, we showed the 5p arm and 3p arm miRNA derived from the same pre-miRNAs have different tissue expression preference, one preferred normal tissue and the other preferred tumor tissue, which strongly implied that there could be other mechanism controlling arm selection in addition to the hydrogen-bonding selection rule.
Our result showed the 5p arm and 3p arm miRNA derived from the same pre-miRNAs have different tissue expression preference, one preferred normal tissue and the other preferred tumor tissue, which strongly implied that there could be other mechanism controlling mature miRNA selection in addition to the known hydrogen-bonding selection rule.
Figure 9 Map key expression preference.
It shows the condition-mediated changes in expression preference of each gene.
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