title: Protein-DNA interaction mapping using genomic tiling path microarrays in Drosophila.
abstract: We demonstrate the use of a chromosomal walk (or "tiling path") printed as DNA microarrays for mapping protein-DNA interactions across large regions of contiguous genomic DNA in Drosophila melanogaster. Microarrays were constructed with genomic DNA fragments 430-920 bp in length, covering 2.9 million base pairs of the Adh-cactus region of chromosome 2 and 85,000 base pairs of the 82F region of chromosome 3. We performed DNA localization mapping for the heterochromatin protein HP1 and for the sequence-specific GAGA transcription factor, producing a comprehensive, high-resolution map of in vivo protein-DNA interactions throughout these regions of the Drosophila genome.
authors.affiliation: Department of Genetics and Biostatistics Division, Yale University School of Medicine, New Haven, CT 06520, USA.
authors.forename: Ling V
authors.initials: LV
authors.lastname: Sun
authors.forename: Liang
authors.initials: L
authors.lastname: Chen
authors.forename: Frauke
authors.initials: F
authors.lastname: Greil
authors.forename: Nicolas
authors.initials: N
authors.lastname: Negre
authors.forename: Tong-Ruei
authors.initials: TR
authors.lastname: Li
authors.forename: Giacomo
authors.initials: G
authors.lastname: Cavalli
authors.forename: Hongyu
authors.initials: H
authors.lastname: Zhao
authors.forename: Bas
authors.initials: B
authors.lastname: Van Steensel
authors.forename: Kevin P
authors.initials: KP
authors.lastname: White
mesh_terms: D020816:Amino Acid Motifs; D000818:Animals; D002843:Chromatin / Q000378:metabolism; D004247:DNA / Q000378:metabolism*; D004268:DNA-Binding Proteins / Q000737:chemistry*; D004330:Drosophila / Q000235:genetics*; D020411:Oligonucleotide Array Sequence Analysis; D011233:Precipitin Tests; D011506:Proteins / Q000378:metabolism
chemical_list: D002843:Chromatin; D004268:DNA-Binding Proteins; D011506:Proteins; D004247:DNA