Question

Program to find genes up/down-regulated by a given gene

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9.9 years ago

c_u ▴ 520

Hi,

I wanted to know if there is any program available that can take my gene of interest as input and give me the genes that are up/down-regulated by it.

Any help would be highly appreciated.

geo upregulated gene downregulated • 2.5k views

ADD COMMENT • link updated 21 months ago by Ram 44k • written 9.9 years ago by c_u ▴ 520

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also, does anyone think 'Expression Atlas' does this?

ADD REPLY • link 8.7 years ago by c_u ▴ 520

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9.9 years ago

alesssia ▴ 580

Beside KEGG, you can also look at WikiPathways and Reactome. Moreover, Cytoscape offers some plugins for regulation network and pathways analysis.

ADD COMMENT • link updated 2.7 years ago by Ram 44k • written 9.9 years ago by alesssia ▴ 580

score 2 · Accepted Answer · 2015-02-09

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9.9 years ago

Ram 44k

I guess you can look at KEGG, probably at programmatic queries to it. How I wish we had such a resource though!

ADD COMMENT • link 9.9 years ago by Ram 44k

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Thanks Ram for the quick reply. I'll have a look. Actually I am planning to do this as my Masters thesis - making this tool.

ADD REPLY • link 9.9 years ago by c_u ▴ 520

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I look forward to seeing a working prototype!

ADD REPLY • link 9.9 years ago by Ram 44k

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Hey man, the internet gods send me here. Did you do it ?

ADD REPLY • link 5.0 years ago by hugo.avila ▴ 540

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(Sorry, i replied to the wrong person.) Hey man, the internet gods send me here. Did you do it ?

ADD REPLY • link 5.0 years ago by hugo.avila ▴ 540

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Hey hugo, yes! And we are planning to publish it early next year. Will upload a preprint soon and will post the link here