C.-L. Wei et al., "A global map of p53 transcription-factor binding sites in the human genome," Cell, 124:207-19, 2006. (Cited in 184 papers)
Yijun Ruan, of the Genome Institute of Singapore, and colleagues wanted a better way to study where transcription factors (TFs) bind to DNA. They developed a genome-wide technique using chromatin immunoprecipitation (ChIP), which isolates DNA bound to proteins such as transcription factors. They then sequenced the DNA using a novel paired end ditag (PET) method which tags both 3' and 5' end of the DNA.
Using the tool called ChIP-PET, on p53, Ruan et al. identified 542 binding sites, 98 of which were located on previously unidentified genes.
Since 2006, ChIP-sequencing methods, like ChIP-PET, have become commonly used, says Mark Biggin, at the Ernest Orlando Lawrence Berkeley National Laboratory, for studying whole genome binding of TFs controlling development, speech, and language. Other researchers have gone on to ...
