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
Literature & Tutorials:
This record last updated: 04-17-2014