Feature table
Using the icons at the top right of the table, you can switch between three modes:
- Features in table view
- Features in grid view
- qPCR normalization genes
For miRNA analyses, the table contains mature miRNAs. For RNA analyses, the table contains protein coding genes and long non-coding RNA (lncRNA, incl. subtypes).
For differential expression analyses between two groups of samples, the fold change indicates the expression levels in group 1 relative to group 2. For example:
- If expression values in group 1 are twice as large as in group 2, the fold change will be +2.
- If expression values in group 2 are twice as large as in group 1, the fold change will be -2.
For differential expression analyses across groups, the fold change represents the maximum pairwise fold change between any two of the groups.
Features in table view and Features in grid view
These views list differentially expressed genes or miRNAs features that meet the applied filter settings described in the Filtering section.
Select one or more features to have these highlighted in the volcano plot and heat map.
Click on Download full list above the table to get the full table in .xlsx format.
qPCR normalization genes
This view contains 20 genes or miRNAs that are stably expressed across the conditions analyzed in the differential expression. These genes are candidates for inclusion in follow-up qPCR assays, where they can be used to normalize expression levels for qPCR experiments on the same conditions.
Fold change and minimum CPM (Counts per Million, TMM-adjusted) values for each group are provided.
How this list is generated is described in the section Create experiment analysis workflow.
Select one or more features to have these highlighted in the volcano plot.
When on this view, filtering will be disabled.
For a list of qPCR normalization genes to be available, the underlying samples must be analyzed with sample kit analysis workflows listed as most recent for RNA-seq Analysis Portal 2.5 or later, see Table 2 in Appendix C.