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A whole-genome mouse BAC microarray with 1-Mb resolution for analysis of DNA copy number changes by array comparative genomic hybridization.
- Source :
-
Genome research [Genome Res] 2004 Jan; Vol. 14 (1), pp. 188-96. - Publication Year :
- 2004
-
Abstract
- Microarray-based comparative genomic hybridization (CGH) has become a powerful method for the genome-wide detection of chromosomal imbalances. Although BAC microarrays have been used for mouse CGH studies, the resolving power of these analyses was limited because high-density whole-genome mouse BAC microarrays were not available. We therefore developed a mouse BAC microarray containing 2803 unique BAC clones from mouse genomic libraries at 1-Mb intervals. For the general amplification of BAC clone DNA prior to spotting, we designed a set of three novel degenerate oligonucleotide-primed (DOP) PCR primers that preferentially amplify mouse genomic sequences while minimizing unwanted amplification of contaminating Escherichia coli DNA. The resulting 3K mouse BAC microarrays reproducibly identified DNA copy number alterations in cell lines and primary tumors, such as single-copy deletions, regional amplifications, and aneuploidy.
- Subjects :
- Animals
Cell Line
Cell Line, Tumor
Chromosomal Instability genetics
Chromosome Deletion
DNA Primers genetics
Female
Fibroblasts chemistry
Fibroblasts metabolism
Gene Amplification genetics
Male
Mice
Mice, Inbred C57BL
Polymerase Chain Reaction
Sex Factors
Stem Cells chemistry
Stem Cells metabolism
Chromosomes, Artificial, Bacterial genetics
DNA analysis
Gene Dosage
Genome
Nucleic Acid Hybridization methods
Oligonucleotide Array Sequence Analysis methods
Subjects
Details
- Language :
- English
- ISSN :
- 1088-9051
- Volume :
- 14
- Issue :
- 1
- Database :
- MEDLINE
- Journal :
- Genome research
- Publication Type :
- Academic Journal
- Accession number :
- 14707179
- Full Text :
- https://doi.org/10.1101/gr.1878804