In vitro analysis of DNA–protein interactions by proximity ligation

• DOI: 10.1073/pnas.0611229104
• Publication Date: 2007-02-21T05:04:11Z
• Authors: Sigrun M. Gustafs...; Joerg Schlingemann; Alvaro Rada-Iglesias; Edith Schallmeiner; Masood Kamali-Mog...; Claes Wadelius; Ulf Landegren
• Keywords: Proximity ligation assay; DNA binding site; ENCODE

Protein-binding DNA sequence elements encode a variety of regulated functions genomes. Information about such is currently in state rapid growth, but improved methods are required to characterize the specificity DNA-binding proteins. We have established an vitro method for specific and sensitive solution-phase analysis interactions between proteins nucleic acids nuclear extracts, based on proximity ligation assay. The reagent consumption very low, excellent sensitivity assay enables as few 1-10 cells. show that our results highly reproducible, quantitative, good agreement with both EMSA predictions obtained by using motif finding software. This can be valuable tool in-depth evaluate effects polymorphisms known transcription factor binding sites.