| Simulator: xpp 8.0 | |
| CPU cores: 1 | |
| RAM: 8 GB | |
| Max time: 20 m |
| Submitted: 2022-02-28 09:46:26 PM | |
| Updated: 2022-02-28 09:47:24 PM | |
Status: Succeeded |
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Single compartmental, ball-and-stick models implemented in XPP and full morphological model in Neuron. Paper has been submitted and correlates anatomical properties with electrophysiological recordings from these hard-to-access neurons. For instance we make predictions about location of the spike initiation zone, channel distributions, and synaptic input parameters.
This is the modeling package to accompany paper by:
Cengiz Gunay, Fred Sieling, Logesh Dharmar, Wei-Hsiang Lin, Verena
Wolfram, Richard Marley, Richard A. Baines, and Astrid A. Prinz.
Title: TBD; in preparation.
Download from:
http://www.biology.emory.edu/research/Prinz/Cengiz/Gunay_etal_2014.zip
Requirements:
XPPAUT 5.99 - http://www.math.pitt.edu/~bard/xpp/xpp.html
Neuron 7.1 - http://www.neuron.yale.edu
PANDORA 1.3b - http://software.incf.org/software/pandora
Directories:
channels/ Results of channel fits and related figures (see all_channels.m).
xpp-models/ Isopotential and ball-and-stick models and their figures (see figure_models.m).
morphological/ Multicompartmental model in Neuron (see figures.m).
param-fitter/ Matlab code used for channel parameter fitting (add to Matlab path).
Workflow/history of project:
Channel data were fit with the Neurofit tool and then re-adjusted with param-fitter in Matlab.
XPP models were built with these channels and hand-tuned to fit observed f-I, v-I, and delay.
Neuron model used these channels and some properties of the ball-and-stick model.
Morphological reconstruction passive parameters were tuned to recorded capacitance responses.
Channel distribution hand tuned to mimick observed current responses.
Note:
- Matlab files are scripts with sections that correspond to
figures. They are NOT meant to be run as a whole. Sections must be run
separately.
Please report problems/suggestions/comments to:
Cengiz Gunay (cengique AT users.sf.net)
2014/01/08