Question

Simulation Of Genetic Circuits

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13.0 years ago

Ma ▴ 140

Hi: Does anyone knows of any software that could implement simulation of genetic circuits based on plasmids, promoters, ribosomes, and all that stuff? I have found one called SynBioSS, but if anyone has information about other types of softwares it would be nice. Thanks

simulation • 3.0k views

ADD COMMENT • link updated 13.0 years ago by Giovanni M Dall'Olio 28k • written 13.0 years ago by Ma ▴ 140

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What exactly do you mean by "simulate"?

ADD REPLY • link 13.0 years ago by Michael Schubert ★ 7.1k

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Hi, I mean to be able to tune by a software the different concentrations for example of lacI that acts a repressor of pLac, and try to get probable response measures from genetic circuits. I think that the broad name of this technique is synthetic biology

ADD REPLY • link 13.0 years ago by Ma ▴ 140

score 1 · Answer 1 · 2012-01-12

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12.9 years ago

Giovanni M Dall'Olio 28k

Have you searched in the Software Summary page in the SBML home website?

There are many tools, for example iBioSim.

ADD COMMENT • link 12.9 years ago by Giovanni M Dall'Olio 28k

score 0 · Answer 2 · 2011-12-14

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13.0 years ago

Damian Kao 16k

Synthetic biology is kinda an up and coming field. They have stuff like what you are talking about. http://biobricks.org/ is a good introduction to what it's about.

http://openwetware.org/wiki/Resources has links to various resources.

ADD COMMENT • link 13.0 years ago by Damian Kao 16k

score 0 · Answer 3 · 2012-01-12

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12.9 years ago

Mary 11k

There is one called CircuitsDB, but I don't know if it does the things you need: https://biocluster.di.unito.it/circuits/index.php

But I know CellDesigner had a function for entering equations for rates and such: http://celldesigner.org/

ADD COMMENT • link 12.9 years ago by Mary 11k