These notebooks present hands-on tutorials for topics in modeling in Neuroscience and Systems Biology. The contents are
- Resting membrane potential Discussion of Nernst-Planck and Nernst equation and Goldman-Hodgkin-Katz equation
- Getting started with compartmental modelling in MOOSE Shows how to create a passive neuronal compartment in MOOSE
- More complex current injection protocol Shows how to generate various patterns of (current) pulses for injecting into a compartment
- Multi-compartmental neuron model Describes how you can connect several compartments to create a neuronal cable
- Cable theory Derives the cable equation and then shows its approximation using a voltage clamped multicompartmental cable
- Hodgkin and Huxley's model of K+ current Implements Hodgkin and Huxley's model of K+ current. This is the first step towards modeling action potentials in the squid giant axon.
- Hodgkin and Huxley's model of Na+ current Implements Hodgkin and Huxley's model of Na+ current. The Na+ current is responsible for depolarizing the neuron for an action potential, whereas the K+ current repolarizes it.
- Action potentials Puts together the Na+ and K+ currents to demonstrate Hodgkin and Huxley's model of action potential generation in the squid giant axon.
- Synapses Explains the components of the basic synapse model in MOOSE. There can be multiple ways to model a synapse at different complexities, all based on these basic ideas.
- Leaky integrate and fire (LIF) neurons and synapse Implementation of a network of simple integrate-and-fire neurons connected via synapses.