4.2.3.4 DTU
4.2.3.4.1 Fluoxetine VS Control
Note that contrary to DEA, it is not possible to use the tissue_region covariate in the differential design. Hence the sample from the three tissue regions are considered as biological replicate in this section.
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## FALSE
## 6070## DataFrame with 6 rows and 2 columns
## log2FC qvalue
## <numeric> <numeric>
## ENSRNOT00000082627 -0.1225261 0.465
## ENSRNOT00000016083 0.1212046 0.465
## ENSRNOT00000091574 0.0452601 0.465
## ENSRNOT00000041891 -0.0391653 0.465
## ENSRNOT00000063787 -0.0313036 0.698
## ENSRNOT00000012022 0.0509958 0.790
## sign.lfc
## sig -1 0 1
## FALSE 3022 14 3034Figure 4.52: Top upregulated isoforms
Figure 4.53: Top downregulated isoforms
The complete table for all transcripts passing the labelKeep default filter is available here.
Figure 4.54: Distribution of inferential replicates for the top upregulated isoform, for each sample, splitted by condition
Figure 4.55: Distribution of inferential replicates for the top downregulated isoform, for each sample, splitted by condition
Figure 4.56: TPM, isoform proportion and raw counts for the top upregulated isoform, for each sample, splitted by condition
Figure 4.57: TPM, isoform proportion and raw counts for the top downregulated isoform, for each sample, splitted by condition
Figure 4.58: MA-plot with blue-highlighted genes corresponding to those with qvalue < 0.1