title: DNA microarray technologies for measuring protein-DNA interactions.
abstract: DNA-binding proteins have key roles in many cellular processes, including transcriptional regulation and replication. Microarray-based technologies permit the high-throughput identification of binding sites and enable the functional roles of these binding proteins to be elucidated. In particular, microarray readout either of chromatin immunoprecipitated DNA-bound proteins (ChIP-chip) or of DNA adenine methyltransferase fusion proteins (DamID) enables the identification of in vivo genomic target sites of proteins. A complementary approach to analyse the in vitro binding of proteins directly to double-stranded DNA microarrays (protein binding microarrays; PBMs), permits rapid characterization of their DNA binding site sequence specificities. Recent advances in DNA microarray synthesis technologies have facilitated the definition of DNA-binding sites at much higher resolution and coverage, and advances in these and emerging technologies will further increase the efficiencies of these exciting new approaches.
authors.affiliation: Division of Genetics, Department of Medicine, Harvard/MIT Division of Health Sciences and Technology (HST), Brigham and Women's Hospital and Harvard Medical School, Boston, MA 02115, USA. mlbulyk@receptor.med.harvard.edu
authors.forename: Martha L
authors.initials: ML
authors.lastname: Bulyk
mesh_terms: D000818:Animals; D047369:Chromatin Immunoprecipitation / Q000379:methods; D003432:Cross-Linking Reagents / Q000737:chemistry; D004247:DNA / Q000032:analysis / Q000737:chemistry / Q000378:metabolism*; D004268:DNA-Binding Proteins / Q000032:analysis / Q000235:genetics / Q000378:metabolism*; D006801:Humans; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D011485:Protein Binding
chemical_list: D003432:Cross-Linking Reagents; D004268:DNA-Binding Proteins; D004247:DNA