@article{Giresi01062007,
author = {Giresi, Paul G. and Kim, Jonghwan and McDaniell, Ryan M. and Iyer, Vishwanath R. and Lieb, Jason D.}, 
title = {FAIRE (Formaldehyde-Assisted Isolation of Regulatory Elements) isolates active regulatory elements from human chromatin},
volume = {17}, 
number = {6}, 
pages = {877-885}, 
year = {2007}, 
doi = {10.1101/gr.5533506}, 
abstract ={DNA segments that actively regulate transcription in vivo are typically characterized by eviction of nucleosomes from chromatin and are experimentally identified by their hypersensitivity to nucleases. Here we demonstrate a simple procedure for the isolation of nucleosome-depleted DNA from human chromatin, termed FAIRE (Formaldehyde-Assisted Isolation of Regulatory Elements). To perform FAIRE, chromatin is crosslinked with formaldehyde in vivo, sheared by sonication, and phenol-chloroform extracted. The DNA recovered in the aqueous phase is fluorescently labeled and hybridized to a DNA microarray. FAIRE performed in human cells strongly enriches DNA coincident with the location of DNaseI hypersensitive sites, transcriptional start sites, and active promoters. Evidence for cell-type–specific patterns of FAIRE enrichment is also presented. FAIRE has utility as a positive selection for genomic regions associated with regulatory activity, including regions traditionally detected by nuclease hypersensitivity assays.}, 
URL = {http://genome.cshlp.org/content/17/6/877.abstract}, 
eprint = {http://genome.cshlp.org/content/17/6/877.full.pdf+html}, 
journal = {Genome Research} 
}