Neuron code

When Python is the interpreter, what is a good
design for the interface to the basic NEURON
concepts.

Moderator: hines

ramcdougal
Posts: 136
Joined: Fri Nov 28, 2008 3:38 pm
Location: Yale School of Medicine

Re: Neuron code

Post by ramcdougal » Mon Jun 11, 2018 1:24 pm

Ion channel genealogy lists 524 NEURON calcium channel models, not all distinct. If you click that link, you'll see them grouped by similarity. Clicking on an individual model (dot) in the figure will load it in the channel details pane on the bottom right. The info tab (opened by default) contains extensive metadata about the model. The traces tab shows how that channel responds to various stimuli.

Once you've found a model that is applicable to your situation and has the kinetics you expect, note the filename, then click through the ModelDB link and find that file.

Put care in choosing which channels you put together in a model. Remember the Hodgkin-Huxley model is for a squid axon in cold temperatures (NEURON defaults to a temperature of 6.3 C). It wouldn't make sense to mix that with a temperature-sensitive mammalian model, because at least one of them would be at an non-physiological temperature.

ahmed.hamzah
Posts: 37
Joined: Thu Jun 07, 2018 10:57 am

Re: Neuron code

Post by ahmed.hamzah » Mon Jun 11, 2018 1:39 pm

Thank you.The last comment was important.

ahmed.hamzah
Posts: 37
Joined: Thu Jun 07, 2018 10:57 am

Re: Neuron code

Post by ahmed.hamzah » Tue Jun 12, 2018 4:43 pm

Does the low threshed calcium current model different from squid to the others.

ted
Site Admin
Posts: 5330
Joined: Wed May 18, 2005 4:50 pm
Location: Yale University School of Medicine
Contact:

Re: Neuron code

Post by ted » Wed Jun 13, 2018 10:02 am

Is it known that squid even have a low threshold calcium current?

ahmed.hamzah
Posts: 37
Joined: Thu Jun 07, 2018 10:57 am

Re: Neuron code

Post by ahmed.hamzah » Wed Jun 13, 2018 12:02 pm

I would like to use activation mechanism of calcium is similar to that of sodium current channel, so is there a simple way to do that by using the standard HH for sodium to my max. calcium conductance?

ahmed.hamzah
Posts: 37
Joined: Thu Jun 07, 2018 10:57 am

Re: Neuron code

Post by ahmed.hamzah » Wed Jun 13, 2018 3:20 pm

[Second step: Use your browser to search the hits for the exact string
WRITE nai
or
WRITE ki
Case is important! Avoid any hits that
WRITE Nai
or
WRITE Ki]
can you tell me how ?

Post Reply