Querying Arabidopsis microarray data
ewing at genome.stanford.edu
Thu Aug 31 10:29:03 EST 2000
In the context of the Arabidopsis Functional Genomics Consortium (AFGC),
we have developed two new ways of exploring existing Arabidopsis
First, querying by Clone Id, GenBank accession or gene product
description retrieves all matching elements on current or past AFGC
microarrays. (Search for your favourite gene and see how it has behaved
in AFGC microarray experiments).
Secondly , queries may be made by 'phylogenetic profile'. The
phylogenetic profile is created by BLAST searching Arabidopsis sequences
against multiple compled genomes in different categories - e.g eubacteria,
archaea etc. This allows quick screening for elements on the microarrays
that say are specific to plants, or only match prokaryotic sequences. This
approach is experimental - comments are welcome.
These tools are available at:
Follow the links 'Clone List' and 'Phylogenetic profile search'
Rob Ewing, PhD
AFGC bioinformatics group Tel: (650) 325 1521 ext.343
Carnegie Institution of Washington Fax: (650) 325 6857
260 Panama Street ewing at genome.stanford.edu
Stanford, CA 94305. http://genome-www.stanford.edu/~ewing
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