Normalization

Normalization of transcript quantification data is another possibility to control the quality of the data. Based on the relationship between the three groups of RNA, pre-existing, newly transcribed and total RNA, a simple linear regression can be performed for normalization (Dölken et al., 2008). Since pre-existing and newly transcribed transcript levels added up should equal total RNA levels, a negative linear correlation should be observed between the ratios of newly synthesized/total and pre-existing/total RNA.
If only two of the three RNA fractions have been measured, data can be normalized based on the median half-life.


HALO documentation