[Arabidopsis] visualizing pathways from list of AtXg numbers
(by nicolas.tsesmetzis from bbsrc.ac.uk)
Mon Aug 13 04:02:37 EST 2007
Apologies to all for the misspelt web address. Here is the correct
Thanks to those of you for letting me know.
On 10 Aug 2007, at 10:48, Nicolas Tsesmetzis wrote:
> Hi Dave,
> You can use the Arabidopsis Reactome (www.arabidopsis.reactome.org)
> which contains arabidopsis pathways some of which are manually
> curated and the remaining are imported from KEGG and AraCyc. To
> visualize the pathways from your AGI list follow the link to
> "Skypainter" located on the top of the Arabidopsis Reactome home-
> page, paste your AGI identifiers and click "Paint!". A few seconds
> later you should have the corresponded reactions highlighted on the
> reaction map. If your AGI's are followed by normalised expression
> data, Skypainter's coloring will be done according to the average
> of the numeric values of all identifiers linked to the reaction. A
> time series can be displayed as an animation by providing multiple
> values (on the same line, separated by a single space or tab) for
> each identifier.
> Please note that this is a pre-release of Arabidopsis Reactome. The
> main release (available in a couple of weeks) contains more
> arabidopsis reactions as well as inferred reactions on other plant
> species through orthologous mapping.
> Hope that helps.
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