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In comparison with the aforementioned Per transcripts, Tsc22d3 appeared to respond in a more restrictive fashion.
Raw counts per transcripts were obtained using featureCounts.
The unique transcripts length increased with the number of assembled reads per transcripts, in agreement with a previous study [ 33].
The tim and per transcripts and all three putative to transcripts were detected at equal levels in all body parts, while cry 1 and clk showed slightly lower expression in the antennae than in the other body parts.
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In the second approach expression was quantified on a "per transcript" basis.
Thus, the "per transcript" approach results in a considerable loss of information.
This circularization is thought to increase translation [ 44] which in this case would be targeted to the Per transcript.
Hence, the phenotype of RBM47 loss depends on the intracellular molecular milieu on a per transcript basis.
We then enumerated reads per-transcript and normalized based on the number of high quality, non-contaminant reads per sample to obtain values in reads per million (RPM).
In an effort to be conservative, DESeq chooses as its estimate of dispersion the maximum of a per-transcript estimate and the functional form Eq. 2 which is fitted to the per-transcript estimates for all transcripts.
The expression analysis was performed in two ways: on a "per-gene" basis and on a "per-transcript" basis.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com