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Papers In Press, published online ahead of print October 16, 2001
J. Biol. Chem, 10.1074/jbc.M108506200
Submitted on September 5, 2001
Revised on October 5, 2001
Accepted on October 12, 2001

Characterization of nucleophosmin (B23) as a Myc target by scanning chromatin immunoprecipitation (SChIP)

Karen I. Zeller, Timothy Haggerty, John F. Barrett, Qingbin Guo, Diane R. Wonsey, and Chi V. Dang

Medicine, The Johns Hopkins University School of Medicine, Baltimore, MD 21205

Corresponding Author: cvdang{at}jhmi.edu

The genetic program through which a specific transcription factor regulates a biological response is fundamental to our understanding how instructions in the genome are implemented. The emergence of DNA microarray technology for gene expression analysis has generated vast numbers of target genes resulting from specific transcription factor activity. Here, we use the oncogenic transcription factor c-Myc as proof-of-principle that human genome sequence analysis and scanning of a specific gene by chromatin immunoprecipitation can be coupled to identify target transcription factor binding sequences. We focused on nucleophosmin, also known as B23, which was identified as a candidate Myc responsive gene from a subtractive hybridization screen, and found that sequences in intron 1, and not 5'-sequences in the proximal promoter, are bound by c-Myc in vivo. Hence, a scanning chromatin immunoprecipitation (SchIP) strategy is useful in analyzing functional transcription factor binding sites.


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