This article discuss about the NF-kB activity and its mathematical modeling Understanding NF-κB signaling via mathematical modeling. The NF-kB is a transcription factor mainly involved in the regulation of inflammatory genes. However, I do not really understand this: what do we mean by NF-kB activity ? For instance, if we consider this graph (that is figure 1A in the paper that I linked):
by NF-kB activity on the vertical axis, do we mean the number of RNA molecules produced by the target gene regulated by the NF-kB over time ? Or it depends on the kind of experiment ? In the article it tells: this prediction was confirmed by using EMSA on wild-type cells. What does EMSA effectively measure ?
P.S. The idea that by activity I mean the number of RNA molecules produced comes from the fact that I read some thesis works about NF-kB activity in which Cignal Lenti Reporter System (QIAGEN) is used for the experiment and I read in Reporter Gene Assays that a reporter gene assays are typically used to measure the regulatory ability of an unknown DNA-sequence. This is done by linking the unknown promoter sequence to an easily detectable reporter gene whose product can be easily detected and quantifiably measured. However I do not really understand how EMSA can experimentally give us information about NF-kB activity (maybe because I did not understand how it works).
I thank you in advance.