PhylArray -- phylogenetic probe design algorithm for microarray

What you can do:
A program for designing oligonucleotide probes (from 16S rRNA) for use in phylogenetic microarray experiments.
Highlights:
  • We propose a new probe design algorithm that is able to select microarray probes targeting SSU rRNA at any phylogenetic level.
  • This original approach, implemented in a program called 'PhylArray', designs a combination of degenerate and non-degenerate probes for each target taxon.
  • Comparative experimental evaluations indicate that probes designed with PhylArray yield a higher sensitivity and specificity than those designed by conventional approaches.
  • Applying the combined PhyArray/GoArrays strategy helps to optimize the hybridization performance of short probes.
  • Hybridizations with environmental targets have shown that the use of the PhylArray strategy can draw attention to even previously unknown bacteria.
Keywords:
  • Gene Targeting
  • Molecular Sequence Data
  • Oligonucleotide Array Sequence Analysis
  • Sequence Alignment
  • probe design
  • oligonucleotide probes
  • phylogenetic microarray experiments
  • microarray probes
This record last updated: 04-17-2014

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