Querying Arabidopsis microarray data

Rob Ewing 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
microarray data.

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:

http://AFGC.Stanford.EDU/afgc_html/site2.htm

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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