What databases are available for gene regulatory network graphs starting from a given gene? For example, starting from p53 gene, where can I find a gene regulatory network image that can be exported or embedded to another website?
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3 Answers
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For a free resource, try GenMAPP. Commercial products like Ingenuity Pathway Analysis do the same thing with prettier graphics and a curated approach to network-building, but access can be expensive if you're not affiliated with an institution that will foot the bill.
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If you can't afford ingenuity, KEGG has branched out into regulatory networks as well. Here's the link to their version of the pathway.
http://www.genome.jp/kegg/pathway/hsa/hsa04115.html
Its free to use as a reference and for academic research.
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1$\begingroup$ How did you get to this page? I want exactly the same thing for other genes but I keep winding up at pages that look like this: genome.jp/dbget-bin/www_bget?ko:K02583 and don't know where to go $\endgroup$ Commented Dec 11, 2014 at 19:02
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$\begingroup$ i can click on 'pathway menu' and then use the box to search for my genes and get more diagrams like this one. $\endgroup$– shigetaCommented Dec 17, 2014 at 15:41
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I highly recommend you to visit Pathguide to get a sense of how vast is the catalog of Pathway Databases. Looking into the category Pathway Diagrams or in Transcription Factors / Gene Regulatory Networks should help in your task.
I would start by looking at these DataBases:
- GeneMania
- BioCarta
- WikiPathways
- Reactome
If you are working with a species other than human, perhaps you'll find a more suitable database in PathGuide.
Good luck!
PS: Sorry New user limitations impede me to post more than two links :/
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1$\begingroup$ You can write the links into the comments and someone else can edit your answer. $\endgroup$– Chris ♦Commented Jul 10, 2015 at 20:44