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A rapid method of genomic array analysis of scaffold/matrix attachment regions (S/MARs) identifies a 2.5-Mb region of enhanced scaffold/matrix attachment at a human neocentromere
journal contribution
posted on 2003-07-01, 00:00 authored by Huseyin Sumer, Jeffrey CraigJeffrey Craig, Mandy Sibson, K H Andy ChooHuman neocentromeres are fully functional centromeres that arise at previously noncentromeric regions of the genome. We have tested a rapid procedure of genomic array analysis of chromosome scaffold/matrix attachment regions (S/MARs), involving the isolation of S/MAR DNA and hybridization of this DNA to a genomic BAC/PAC array. Using this procedure, we have defined a 2.5-Mb domain of S/MAR-enriched chromatin that fully encompasses a previously mapped centromere protein-A (CENP-A)-associated domain at a human neocentromere. We have independently verified this procedure using a previously established fluorescence in situ hybridization method on salt-treated metaphase chromosomes. In silico sequence analysis of the S/MAR-enriched and surrounding regions has revealed no outstanding sequence-related predisposition. This study defines the S/MAR-enriched domain of a higher eukaryotic centromere and provides a method that has broad application for the mapping of S/MAR attachment sites over large genomic regions or throughout a genome.
History
Journal
Genome researchVolume
13Issue
7Pagination
1737 - 1743Publisher
Cold Spring Harbor Laboratory PressLocation
Cold Spring Harbor, N.Y.Publisher DOI
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ISSN
1088-9051Language
engPublication classification
C1.1 Refereed article in a scholarly journalCopyright notice
2003, Cold Spring Harbor Laboratory PressUsage metrics
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Cell Line, TransformedCentromereChromosome AberrationsChromosomes, Artificial, BacterialChromosomes, Artificial, P1 BacteriophageChromosomes, Human, Pair 20Contig MappingDNAFibroblastsGene Expression ProfilingHerpesvirus 4, HumanHumansIn Situ Hybridization, FluorescenceMatrix Attachment Region Binding ProteinsMetaphaseOligonucleotide Array Sequence AnalysisSequence Analysis, DNAScience & TechnologyLife Sciences & BiomedicineBiochemistry & Molecular BiologyBiotechnology & Applied MicrobiologyGenetics & HeredityTOPOISOMERASE-IICENP-APOLY(ADP-RIBOSE) POLYMERASECHROMOSOME STRUCTUREHUMAN CENTROMERESPROTEINBINDINGELEMENTSCONSTRUCTION
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