Table 1: Advantages and disadvantages of techniques on studies of NR-DNA interaction.


Technique Application Advantages Disadvantages

EMSA Investigation of interaction between NR and specific DNA sequences. • Simple technique • Rapid and Sensitive • Radioactive labeling • Rapid dissociation of complexes
DNA footprinting Identify interactions with DNA. • Whole genome analysis • in vitro • Radioactive labelling • X-rays films
Reporter gene Quantitative measure of NR activation/repression. In vivo • Easy to standardize • Expensive • NR could act indirectly
Chip-seq Identification of DNA binding sites. • Whole genome analysis • in vitro and in vivo • Require specific antibody • Huge amount of data
3C Identification and mapping NR-DNA physical interactions • Detection of remote chromatin interactions in native cellular state • Require prior knowledge • Low signal-to-noise ratios
Fluorescence anisotropy Quantitative measurement of affinity of interaction of NR-DNA. • Quantitative fast • Require pure protein • Fluorescent labeling