title: Systematic characterization of protein-DNA interactions.
abstract: 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.
authors.affiliation: Department of Ophthalmology, Johns Hopkins University School of Medicine, Baltimore, MD, USA.
authors.forename: Zhi
authors.initials: Z
authors.lastname: Xie
authors.forename: Shaohui
authors.initials: S
authors.lastname: Hu
authors.forename: Jiang
authors.initials: J
authors.lastname: Qian
authors.forename: Seth
authors.initials: S
authors.lastname: Blackshaw
authors.forename: Heng
authors.initials: H
authors.lastname: Zhu
mesh_terms: D047369:Chromatin Immunoprecipitation; D004247:DNA / Q000737:chemistry* / Q000378:metabolism; D004268:DNA-Binding Proteins / Q000032:analysis* / Q000737:chemistry / Q000378:metabolism; D040081:Protein Array Analysis / Q000379:methods; D052156:SELEX Aptamer Technique; D020798:Two-Hybrid System Techniques
chemical_list: D004268:DNA-Binding Proteins; D004247:DNA