title: Methods in high-resolution, array-based comparative genomic hybridization.
abstract: A method of high resolution, array-based comparative genomic hybridization is described for the mapping of copy-number changes associated with chromosomal amplifications, deletions, and translocations. The method involves the design of whole-genome or targeted, fine-tiling arrays for synthesis on a high-density digital microarray-synthesis platform. The arrays can span entire eukaryotic genomes or be targeted to specific chromosomal regions for high-resolution identification of copy-number changes and the corresponding breakpoint locations. The methods described include the bioinformatics required for array design, and the protocols for DNA fragmentation, dual-color labeling, microarray hybridization, and array scanning. The processes for data extraction, normalization, and segmentation analysis are also described.
authors.affiliation: NimbleGen Systems Inc., Madison, WI, USA.
authors.forename: Mark R
authors.initials: MR
authors.lastname: McCormick
authors.forename: Rebecca R
authors.initials: RR
authors.lastname: Selzer
authors.forename: Todd A
authors.initials: TA
authors.lastname: Richmond
mesh_terms: D000818:Animals; D002021:Buffers; D045744:Cell Line, Tumor; D019295:Computational Biology; D004586:Electrophoresis; D016678:Genome; D006801:Humans; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D012015:Reference Standards; D012984:Software
chemical_list: D002021:Buffers