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Originally published In Press as doi:10.1074/jbc.M108506200 on October 16, 2001

J. Biol. Chem., Vol. 276, Issue 51, 48285-48291, December 21, 2001
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Characterization of Nucleophosmin (B23) as a Myc Target by Scanning Chromatin Immunoprecipitation*

Karen I. ZellerDagger , Timothy J. Haggerty§, John F. Barrett§, Qingbin Guo||, Diane R. WonseyDagger §, and Chi V. DangDagger §||**

From the Dagger  Program in Human Genetics and Molecular Biology and § Department of Medicine, || The Johns Hopkins Oncology Center and The Johns Hopkins University School of Medicine, Baltimore, Maryland 21205

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. 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 we 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.

* This work was supported in part by National Institutes of Health Grant CA57341.The costs of publication of this article were defrayed in part by the payment of page charges. The article must therefore be hereby marked "advertisement" in accordance with 18 U.S.C. Section 1734 solely to indicate this fact.

Supported by a Leukemia and Lymphoma Society Fellowship.

** To whom correspondence should be addressed: Ross Research Bldg., Rm. 1025, 720 Rutland Ave., Baltimore, MD 21205. Tel.: 410-955-2773; Fax: 410-955-0185; E-mail: cvdang@jhmi.edu.

Copyright © 2001 by The American Society for Biochemistry and Molecular Biology, Inc.
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