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-   -   [Arabidopsis] How to identify a specific metabolic pathway froma list of genes. (http://www.molecularstation.com/forum/arabidopsis-plant-biology/66940-%5Barabidopsis%5D-how-identify-specific-metabolic-pathway-froma-list-genes.html)

Peifen Zhang 06-16-2009 08:20 PM

[Arabidopsis] How to identify a specific metabolic pathway froma list of genes.
 
Hi Kumar,

Have you tried the "Omics Viewers" tool from AraCyc,
[Only registered and activated users can see links. Click Here To Register...]. The tool is ideal for
displaying quantitative large-scale omics data, such as gene expression,
on Arabidopsis metabolic pathways. For example, reaction steps of
pathways will be color-coded with up or down- regulated enzyme-coding
genes. It allows you visualize and quickly spot areas of metabolism
responding to a particular experimental condition. A tutorial on the
tool is at [Only registered and activated users can see links. Click Here To Register...].

You can also use the tool to display a list of genes without
quantitative data, by simply making up/providing any data value (i.e 2)
for all the genes on your input file.

There is also a flat file of AraCyc that you can use to look up
pair-wise info about genes and pathways,
ftp://ftp.arabidopsis.org/home/tair/..._dump.20090311.

Please write back to us ([Only registered and activated users can see links. Click Here To Register...]) for any questions using
AraCyc.


Regards,
Peifen


KKB wrote:



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