D. W. Tank, Depts. of Molecular
Biology and Physics
J. J. Hopfield ,
Dept. of Molecular Biology
Overview of nervous system organization and electrochemical signaling in neurons (Tank)  Purves et al, Neuroscience, 2nd edition, Chapters 1,2, Reserve APC/EEB/MOL 514  
The Hodgkin/Huxley model of the action potential (Tank) 


Generalization of Hodgkin/Huxley and simplified models of spiking neurons (Tank)  
Neural circuit models of persistent neural activity and short term memory (Tank) 


Action potential synchrony and its significance to neuron computation (Hopfield) 


Action potential synchrony and its significance to neuron computation, continued (Hopfield) 
J.B. Plotkin,
Program in Applied and Computational Mathematics, and
Institute for Advanced Studies,
Program in Theoretical Biology
J. G. Dushoff,
Dept. of Ecology and Evolutionary Biology
A.L. Lloyd,
Institute for Advanced Studies,
Program in Theoretical Biology
Copies of Joshua Plotkin's PowerPoint slides will be distributed in class.
Jonathan Dushoff's Slides #1 (pdf)
Jonathan Dushoff's Slides #2 (pdf)



Introduction to the dynamics of disease (Plotkin) 


Stochastic dynamics of epidemics (Plotkin) 


Influenza dynamics and vaccination strategies (Plotkin) 


Multigroup models of epidemics (Dushoff) 


Global dynamics and stability (Dushoff)  
Spatial heterogeneity in epidemic models (Lloyd) 

Bill Bialek's Notes on Phototransduction  includes HW5 (pdf)



Phototransduction 1 (Bialek) 


FALL RECESS  
Phototransduction 2 (Bialek)  
Phototransduction 3 (Bialek)  
Chemotaxis 1 (Bialek)  
Chemotaxis 2 (Bialek)  
Chemotaxis 3 (Bialek) 
E. C. Cox ,
Dept. of Molecular Biology
S.Y. Shvartsman,
Dept. of Chemical Engineering



What kinds of spatial patterns do we see and what needs to be explained? (Cox) 


Order from disorder in simple systems, and patterns from prepatterns in complex systems (Cox)  
THANKSGIVING RECESS  
Long range order in dynamical systems (Cox) 


Microscopic origins of diffusion and transport (Shvartsman) 


Cell communication mechanisms in development (Shvartsman) 


Pattern formation is paracrine and autocrine networks (Shvartsman) 