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Team:Stanford/NotebookPage/15 April 2010
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Journal Club 4/15/10
[http://docs.google.com/present/edit?id=0AeGtz3V56Y9xZGRtOGc0dm1fMTIwNWNqeG03enBn&hl=en Presentation] by Alejandro
DNA-ligand binding
d[DNA-L]/dt = k_on*[DNA][L] - k_off*[DNA-L]
If we define: [TotalDNA] = [DNA] + [DNA-L]
Then: d[DNA-L]/dt = k_on*([TotalDNA] - [DNA-L]) - k_off*[DNA-L]
Solving, we get: [DNA-L] = [TotalDNA][L] / (k_off/k_on + L)
Usually, we define the dissociation constant to be: kD = k_off/k_on
So we end up with: [DNA-L] = [TotalDNA][L] / (kD + L)
Other oscillators
Repressilator
Did not end up working too well in the long run, but ground-breaking for its time.
A ---| B ---| C ---| A
The [http://www.nature.com/nature/journal/v403/n6767/abs/403335a0.html original paper].
Repressilator on Wikipedia.
See also
- [http://www.nature.com/nature/journal/v463/n7279/full/463301a.html Commentary on Danino et al.]
- [http://www.nature.com/nature/journal/v463/n7279/suppinfo/nature08753.html Cool videos]
