Validation of S. pombe sequence assembly by microarray hybridization

Joseph West, John Healy, Michael Wigler, William Casey, Bud Mishra

Research output: Contribution to journalArticle

Abstract

We describe a method to make physical maps of genomes using correlative hybridization patterns of probes to random pools of BACs. We derive thereby an estimated distance between probes, and then use this estimated distance to order probes. To test the method, we used BAC libraries from Schizzosaccharomyces pombe. We compared our data to the known sequence assembly, in order to assess accuracy. We demonstrate a small number of significant discrepancies between our method and the map derived by sequence assembly. Some of these discrepancies may arise because genome order within a population is not stable; imposing a linear order on a population may not be biologically meaningful.

Original languageEnglish (US)
Pages (from-to)1-20
Number of pages20
JournalJournal of Computational Biology
Volume13
Issue number1
DOIs
StatePublished - Jan 2006

Keywords

  • Genome sequence assembly
  • Microarray hybridization
  • Physical maps

ASJC Scopus subject areas

  • Modeling and Simulation
  • Molecular Biology
  • Genetics
  • Computational Mathematics
  • Computational Theory and Mathematics

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