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Tumor Suppressor Genes pp 117–127Cite as

DNA Footprinting

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Part of the Methods in Molecular Biology™ book series (MIMB,volume 223)

Abstract

The classic paper by Schmitz and Galas (1) established the usefulness of footprinting analysis for identifying protein-bound sites on DNA. The basis of the footprinting technique is that DNA-bound proteins protect the phosphodiester backbone of DNA from modification or cleavage by external agents, such as deoxyribonuclease. The technique is used most commonly to identify protected DNA sequences that are binding sites for transcription factors or other proteins involved in transcription initiation. When used in combination with other methods that confirm high-affinity protein-DNA interactions, such as electrophoretic mobility shift assay or chromatin immunoprecipitation, footprinting adds important evidence that delineates the residues critical for protein binding.

Keywords

  • Electrophoretic Mobility Shift Assay
  • Agarose Bead
  • Dimethyl Sulfate
  • Bromphenol Blue
  • Rabbit Reticulocyte Lysate

These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

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  • DOI: 10.1385/1-59259-329-1:117
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References

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Author information

Authors and Affiliations

  1. Howard Hughes Medical Institute, Department of Medicine, University of Pennsylvania School of Medicine, Philadelphia, PA

    M. Stacey Ricci

  2. Howard Hughes Medical Institute, Department of Genetics, University of Pennsylvania School of Medicine, Philadelphia, PA

    M. Stacey Ricci

  3. Howard Hughes Medical Institute, Department of Pharmacology, University of Pennsylvania School of Medicine, Philadelphia, PA

    M. Stacey Ricci

  4. Department of Medicine, University of Pennsylvania School of Medicine, Philadelphia, PA

    Wafik S. El-Deiry

  5. Department of Genetics, University of Pennsylvania School of Medicine, Philadelphia, PA

    Wafik S. El-Deiry

  6. Department of Pharmacology, University of Pennsylvania School of Medicine, Philadelphia, PA

    Wafik S. El-Deiry

Authors
  1. M. Stacey Ricci
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  2. Wafik S. El-Deiry
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Editor information

Editors and Affiliations

  1. Department of Medicine, University of Pennsylvania School of Medicine, Philadelphia, PA

    Wafik S. El-Deiry MD, PhD

  2. Department of Genetics, University of Pennsylvania School of Medicine, Philadelphia, PA

    Wafik S. El-Deiry MD, PhD

  3. Department of Pharmacology, University of Pennsylvania School of Medicine, Philadelphia, PA

    Wafik S. El-Deiry MD, PhD

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© 2003 Humana Press Inc.

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Ricci, M.S., El-Deiry, W.S. (2003). DNA Footprinting. In: El-Deiry, W.S. (eds) Tumor Suppressor Genes. Methods in Molecular Biology™, vol 223. Humana Press. https://doi.org/10.1385/1-59259-329-1:117

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  • DOI: https://doi.org/10.1385/1-59259-329-1:117

  • Publisher Name: Humana Press

  • Print ISBN: 978-0-89603-987-2

  • Online ISBN: 978-1-59259-329-3

  • eBook Packages: Springer Protocols