Genomewide identification of nuclear matrix attachment regions: An analysis of methods

A. K. Linnemann, A. E. Platts, N. Doggett, A. Gluch, J. Bode, S. A. Krawetz

Research output: Contribution to journalArticle

18 Scopus citations

Abstract

High-throughput technologies now afford the opportunity to directly determine the distribution of MARs (matrix attachment regions) throughout a genome. The utility of cosmid and oligonucleotide platforms to identify human chromosome 16 MARs from preparations that employed LIS (lithium di-iodosalicylic acid) and NaCl extraction protocols was examined. The effectiveness of the platforms was then evaluated by Q-PCR (quantitative real-time PCR). Analysis revealed that caution must be exercised, since the representation of non-coding regions varies among platforms. Nevertheless, several interesting trends were revealed. We expect that these technologies will prove useful in systems approaches directed towards defining the role of MARs in various cell types and cellular processes.

Original languageEnglish (US)
Pages (from-to)612-617
Number of pages6
JournalBiochemical Society transactions
Volume35
Issue number3
DOIs
StatePublished - Jun 1 2007

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Keywords

  • Chromosome 16
  • Genomic analysis
  • Lithium di-iodosalicylic acid (LIS)
  • Matrix attachment region
  • Nuclear matrix

ASJC Scopus subject areas

  • Biochemistry

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