Computational Neuroscience

MATH/BIOL/EECS/EBME/NEUR 478
MATH/BIOL/COGS 378

Syllabus

Course Grader & Teaching Assistant: TBA

Schedule of Homework Exercises

A schedule of readings and in-class exercises will be available here. Every Friday will be devoted to in-class programming exercises, usually using the NEURON simulation environment. Some exercises may involve MATLAB or XPP.

Number	Date Assigned	Assignment	Date Due
1	1/11		1/18
2	1/25		2/1
3	2/8		2/15
4	2/22		3/1
-	-	Project Proposal Due. Include specific aims, background and significance, methods, and expected results. Page limit: 3 pages.	3/1
5	3/15		3/22
6	3/29		4/5
-	-	Project Writeup Due.	4/12
7	4/12		4/19
-	-	Project Presentations	4/26,4/29

* denotes problems to be done by all students.
** denotes problems to be done students enrolled in MATH 378 or any of the cross-lists numbered 478.
Any math or statistics majors and any graduate students enrolled in any section should do these problems as well.
*** denotes problems to be done by students enrolled under MATH 478, or math graduate students enrolled under any course number.

COURSE RESOURCES

Fundamentals of Computational Neuroscience by Thomas Trappenberg.
The NEURON simulation environment.
Here is a set of hands-on exercises for learning NEURON.
Spikes, Decisions and Actions by Hugh R. Wilson.
Here is a link to the last (online) chapter of Dynamical Systems in Neuroscience by Eugene Izhikevich.

FURTHER RESOURCES

XPP/AUTO

Download XPP here.
Download some simple course exercises separately or all in one tar file.

Izhikevich's code for "simple models"

Download the tar file.

Exploring the Morris Lecar Burster with XPP

Download the tar file.

Bursting and Dendritic Morphology

Download Mainen & Sejnowski's 1996 Nature paper and the hoc code for the associated exercise.

Contact Prof. Thomas.

Updated: November 3, 2009