Mining DNA microarray data using a novel approach based on graph theory

Gabriel Del Rio, Theodore F. Bartley, Heberto Del-Rio, Rammohan Rao, Kun Lin Jin, David A. Greenberg, Mark Eshoo, Dale E. Bredesen

Research output: Contribution to journalArticlepeer-review

13 Scopus citations

Abstract

The recent demonstration that biochemical pathways from diverse organisms are arranged in scale-free, rather than random, systems [Jeong et al., Nature 407 (2000) 651-654], emphasizes the importance of developing methods for the identification of biochemical nexuses - the nodes within biochemical pathways that serve as the major input/output hubs, and therefore represent potentially important targets for modulation. Here we describe a bioinformatics approach that identifies candidate nexuses for biochemical pathways without requiring functional gene annotation; we also provide proof-of-principle experiments to support this technique. This approach, called Nexxus, may lead to the identification of new signal transduction pathways and targets for drug design.

Original languageEnglish
Pages (from-to)230-234
Number of pages5
JournalFEBS Letters
Volume509
Issue number2
DOIs
StatePublished - 7 Dec 2001

Keywords

  • Cerebral ischemia
  • DNA microarray
  • Functional genomics
  • Graph theory
  • Yeast cell cycle
  • Yeast metabolism

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