I am performing microRNA expression analysis (750 miRNA) and, as was expected, I have many missing values (consequence of Ct values above or below cut-off, low amplification scores, or simply "undetermined" values returned by OpenArray platform). I wanted to ask you how should I treat these missing data in order to be able to perform heatmap (which requires a numerical matrix). I have seen that authors propose several approaches and I wanted to know your opinions.
Two options:
1) Use the maximum Ct (usually 35). Here you are assuming that the missing value is cause the expression is very low
2) Use NA and filter undetermined expressed miRNAs
In both cases I always recommend to filter low expressed miRNAs (or undetermined), because they affect to FC values
- Badges
- Science topic
- Similar topics
- Biological Science
- Biochemistry
- Biomolecules
- Nucleic Acids
- RNA
- Small RNA
- microRNA