Tool to predict perturbation in biological system

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6.3 years ago

ste.lu ▴ 80

Hi All,

I was wondering if you are aware of a tool to predict perturbation in a pathway or a simple cell model. What I have in mind is a reduction of a specific protein and the effect of this reduction on the other proteins, for several nodes and edges, something you could do in Cell Designer, but I don't know where to get the constants of interactions and all the other values.

Thank you

mathematical model cell designer system biology • 990 views

ADD COMMENT • link 6.3 years ago by ste.lu ▴ 80

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It is completely unclear which data you have.

ADD REPLY • link 6.3 years ago by WouterDeCoster 47k

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I don't have data, I was purely speculating a tool. I guess I would use some differential expression in genes expression, probably from RNA-Seq.

ADD REPLY • link 6.3 years ago by ste.lu ▴ 80

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Usually you need to mine the various constants from the literature (possibly making vague predictions about some of the unknown values).

ADD REPLY • link 6.3 years ago by Devon Ryan 105k

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