Isolation of specific genomic regions retaining molecular interactions is 
necessary for their biochemical analysis. Here, we established a novel method, 
engineered DNA-binding molecule-mediated chromatin immunoprecipitation (enChIP), 
for purification of specific genomic regions retaining molecular interactions. 
We showed that enChIP using the CRISPR system efficiently isolates specific 
genomic regions. In this form of enChIP, specific genomic regions are 
immunoprecipitated with antibody against a tag(s), which is fused to a 
catalytically inactive form of Cas9 (dCas9), which is co-expressed with a guide 
RNA (gRNA) and recognizes endogenous DNA sequence in the genomic regions of 
interest. enChIP-mass spectrometry (enChIP-MS) targeting endogenous loci 
identified associated proteins. enChIP using the CRISPR system would be a 
convenient and useful tool for dissecting chromatin structure of genomic regions 
of interest.