Computational Neuroscience


Full Syllabus

Course Description

Computer simulations and mathematical analysis of neurons and neural circuits, and the computational properties of nervous systems. Students are taught a range of models for neurons and neural circuits, and are asked to implement and explore the computational and dynamic properties of these models. The course introduces students to dynamical systems theory for the analysis of neurons and neural circuits, as well as to cable theory, passive and active compartmental modeling, numerical integration methods, models of plasticity and learning, models of brain systems, and their relationship to artificial neural networks. Term project required. Recommended prerequisites: multivariate calculus (MATH 223) and a first course in differential equations (either MATH 224 or the sequence BIOL 300 and BIOL 306). Cross-listed as BIOL 378/478, MATH 378/478, COGS 378, EECS 478, EBME 478, NEUR 478. Students enrolled in MATH 478 will make arrangements with the instructor to attend additional lectures and complete additional assignments addressing mathematical topics related to the course. Consent of department required.


Peter Thomas Asst. Prof. of Mathematics, Biology & Cognitive Science / 216-368-3623
Office hours: MW 12:30-2:00 or by appointment.
Course meeting: MWF 10:30-11:20 a.m.
Location: White 324

Course Grader & Teaching Assistant: Catherine Kehl.


Course Folder on Google Docs


The NEURON simulation environment


Download XPP here.
Download the first set of course exercises separately or all in one tar file. For the second set of XPP exercises (for Friday 2/12/2010) here are For the third set of XPP exercises (for Monday 2/22/2010) here is a .tar file containing the following: For the fourth set of XPP exercises (for Wednesday 4/21/2010) here are the files with



Izhikevich's code for "simple models"

Download the tar file.

Statistical Neural Field Models

Download Wilson and Cowan's 1972 Biophysical Journal article.

Bursting and Dendritic Morphology

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

Contact Prof. Thomas.

Updated: January 6, 2010