足迹法(Footprinting)

Footprinting Procedures

·         DNase I Footprinting (Mike A. Dyer)

·         DNase I footprinting
Determining the site of binding for a protein on a DNA sequence

·         DNase I Footprinting (Bowtell Lab)

·         DNase I Footprinting (Crawford Lab)
Detailed protocol for footprinting, including strategy for probe labeling, recipes and more...

·         Exonuclease III footprinting

·         Hydroxyl radical footprinting (TTO)
(To view this article, registration is needed, but free)
Hydroxyl radical footprinting is a powerful technique for investigating DNA­protein interactions. In contrast to DNase I footprinting, it allows the exact determination of contact sites in the DNA target sequence. This is a modification of this method in which the DNA fragments for the footprint assay are non-radioactively labeled and generated by PCR. The fragments are analyzed after incubation with the specific DNA-binding protein and subsequent treatment with hydroxyl radicals, on an ALFexpress DNA Sequencer

Other procedures

·         DMS-treating DNA (Indiana U)
DMS treatment under controlled conditions, followed by piperidine cleavage, yeilds a ladder of fragments indicating the positions of all G residues in the DNA sequence. These ladders are useful MW standards for S1 experiments, footprinting, etc.

·         Preparation of G+A Marker (Technical Tips Online)
A rapid one-step procedure for preparation of G plus A sequence markers by acid-induced apurinization and DNA cleavage

Preparation of G+A Marker
Simplified method for preparing G+A ladder run along with footprinting reaction. It's much simple than the original Maxima-Gilbert sequencing reaction and works fine.