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--- wiki:chapter_2:biological_dynamics_and_reaction_kinetics [2013/03/24 16:59] – emj
+++ wiki:chapter_2:biological_dynamics_and_reaction_kinetics [2013/04/03 15:40] (current) – emj
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-====== Chapter 2: Biological Dynamics and Reaction Kinetics ======
+====== Chapter 2: Reaction Kinetics and Biological Dynamics ======
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-    * Mass action kinetics
+    * These all depend on Mathematica(R) and xCellerator. See [[wiki:software_availability|Software availability]]
-    * Stochastic simulation algorithm
+    * {{:wiki:chapter_2:intro_example.nb|Introductory example: {A->B, B->C}}}
-    * PIP3 metabolism
+    * {{:wiki:chapter_2:massaction.nb|Mass action kinetics}}
+    * {{:wiki:chapter_2:ssa_example.nb|Stochastic simulation algorithm (SSA) example}}
+    * {{:wiki:chapter_2:pip3metablismv2.nb|PIP3 metabolism}}
     * Analytic solution of 2×2 master equation for binding/unbinding
     * Analytic solution of trivalent reaction A+B <–> C
+    * {{:wiki:chapter_2:huang_ferrell_1996_mapkv2.nb|MAPK cascade model}} of Huang and Ferrell 1996
@@ Line 30: / Line 33: @@
     * S-E-P deterministic simulation
     * S-E-P stochastic simulation

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