Systematic characterization of protein-DNA interactions

Zhi Xie, Shaohui Hu, Jiang Qian, Seth Blackshaw, Heng Zhu

Research output: Contribution to journalReview articlepeer-review

28 Scopus citations


Sequence-specific protein-DNA interactions (PDIs) are critical for regulating many cellular processes, including transcription, DNA replication, repair, and rearrangement. We review recent experimental advances in high-throughput technologies designed to characterize PDIs and discuss recent studies that use these tools, including ChIP-chip/seq, SELEX-based approaches, yeast one-hybrid, bacterial one-hybrid, protein binding microarray, and protein microarray. The results of these studies have challenged some long-standing concepts of PDI and provide valuable insights into the complex transcriptional regulatory networks.

Original languageEnglish (US)
Pages (from-to)1657-1668
Number of pages12
JournalCellular and Molecular Life Sciences
Issue number10
StatePublished - May 2011


  • DNA-binding specificity
  • Protein DNA interactions
  • Protein microarray
  • Transcription factors
  • Unconventional DNA-binding proteins

ASJC Scopus subject areas

  • Molecular Medicine
  • Molecular Biology
  • Pharmacology
  • Cellular and Molecular Neuroscience
  • Cell Biology


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