Commit 9e39752f authored by FAGES Francois's avatar FAGES Francois
Browse files

notebooks

parent 792a196c
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% Minimal mitotic oscillator after Albert Goldbeter 1991 PNAS
% in Biocham v4 by F. Fages
parameter(VM1=3, VM3=1, Kc=0.5, vi=0.025,
kd=0.01, vd=0.25, Kd=0.02, K1=0.005,
V2=1.5, K2=0.005, K3=0.0051, K4=0.005, V4=0.5).
vi for _=>Cyclin.
kd*Cyclin for Cyclin=>_.
Kinase*V2/(K2+Kinase) for Kinase=>KinaseP.
VM1*(KinaseP/(K1+KinaseP))*Cyclin/(Kc+Cyclin) for KinaseP=[Cyclin]=>Kinase.
Kinase*Protease*VM3/(K3+Protease) for Protease=[Kinase]=>ProteaseP.
ProteaseP*V4/(K4+ProteaseP) for ProteaseP=>Protease.
vd*Cyclin/(Kd+Cyclin)*ProteaseP for Cyclin=[ProteaseP]=>_.
present(Cyclin,0.01). present(Kinase,0.01). present(ProteaseP,0.01). present(KinaseP,0.99). present(Protease,0.99).
option(time:100).
tutorial17cmsb.ipynb
\ No newline at end of file
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......@@ -108,7 +108,7 @@ of this software.<br>
<p>Feedback on the use of Biocham in applications, research or teaching
are particularly welcomed. </p>
<h2>Biocham notebook online</h2>
<p> Try the <a href="http://lifeware.inria.fr:8888/notebooks/examples/MPCE/ASSB.ipynb">tutorial</a> notebook (presented at <a href="https://assb.lri.fr/fr/programme.php"> aSSB 2018</a>) or the <a href="http://lifeware.inria.fr:8888/notebooks/examples/tutorial/tutorial17cmsb.ipynb">historical tutorial</a> notebook (presented at <a href="https://www.etit.tu-darmstadt.de/cmsb2017/cmsb_2/home/index.en.jsp"> CMSB 2017</a>) on our server.</p>
<p> Try the <a href="http://lifeware.inria.fr:8888/notebooks/examples/tutorial/tutorialShort.ipynb">short tutorial</a> notebook (presented at <a href="https://assb.lri.fr/fr/programme.php"> aSSB 2018</a>) or the <a href="http://lifeware.inria.fr:8888/notebooks/examples/tutorial/tutorialLongHistory.ipynb">historical tutorial</a> notebook (presented at <a href="https://www.etit.tu-darmstadt.de/cmsb2017/cmsb_2/home/index.en.jsp"> CMSB 2017</a>) on our server.</p>
<p>
Try the other examples, or upload your own ones, on our <a href="http://lifeware.inria.fr:8888/">online notebook</a>.
......
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