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Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
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Model Information
Model File
Accession:
187474
" ... In this work, we develop and apply an automated, stepwise method for fitting a neuron model to data with fine spatial resolution, such as that achievable with voltage sensitive dyes (VSDs) and Ca2+ imaging. ... We apply our method to simulated data from layer 5 pyramidal cells (L5PCs) and construct a model with reduced neuronal morphology. We connect the reduced-morphology neurons into a network and validate against simulated data from a high-resolution L5PC network model. ..."
Reference:
1 .
Hay E, Hill S, Schürmann F, Markram H, Segev I (2011) Models of neocortical layer 5b pyramidal cells capturing a wide range of dendritic and perisomatic active properties.
PLoS Comput Biol
7
:e1002107
[
PubMed
]
2 .
Hay E, Segev I (2015) Dendritic Excitability and Gain Control in Recurrent Cortical Microcircuits.
Cereb Cortex
25
:3561-71
[
PubMed
]
3 .
Mäki-Marttunen T, Halnes G, Devor A, Metzner C, Dale AM, Andreassen OA, Einevoll GT (2018) A stepwise neuron model fitting procedure designed for recordings with high spatial resolution: Application to layer 5 pyramidal cells.
J Neurosci Methods
293
:264-283
[
PubMed
]
Citations
Citation Browser
Model Information
(Click on a link to find other models with that property)
Model Type:
Neuron or other electrically excitable cell;
Brain Region(s)/Organism:
Neocortex;
Cell Type(s):
Neocortex L5/6 pyramidal GLU cell;
Channel(s):
I Na,p;
I Na,t;
I L high threshold;
I T low threshold;
I A;
I M;
I h;
I K,Ca;
I Calcium;
I A, slow;
Gap Junctions:
Receptor(s):
Gene(s):
Transmitter(s):
Simulation Environment:
NEURON;
NEURON (web link to model);
Python;
NeuroML;
Model Concept(s):
Implementer(s):
Maki-Marttunen, Tuomo [tuomomm at uio.no];
Metzner, Christoph [c.metzner at herts.ac.uk];
Search NeuronDB
for information about:
Neocortex L5/6 pyramidal GLU cell
;
I Na,p
;
I Na,t
;
I L high threshold
;
I T low threshold
;
I A
;
I M
;
I h
;
I K,Ca
;
I Calcium
;
I A, slow
;
/
reducedhaymodel
snmf
models
morphologies
README.html
Ca_HVA.mod
*
Other models using Ca_HVA.mod:
Layer V pyramidal cell functions and schizophrenia genetics (Mäki-Marttunen et al 2019)
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
Pleiotropic effects of SCZ-associated genes (Mäki-Marttunen et al. 2017)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
Schiz.-linked gene effects on intrinsic single-neuron excitability (Maki-Marttunen et al. 2016)
Ca_LVAst.mod
*
Other models using Ca_LVAst.mod:
Layer V pyramidal cell functions and schizophrenia genetics (Mäki-Marttunen et al 2019)
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
Pleiotropic effects of SCZ-associated genes (Mäki-Marttunen et al. 2017)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
Schiz.-linked gene effects on intrinsic single-neuron excitability (Maki-Marttunen et al. 2016)
CaDynamics_E2.mod
*
Other models using CaDynamics_E2.mod:
Layer V pyramidal cell functions and schizophrenia genetics (Mäki-Marttunen et al 2019)
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
Pleiotropic effects of SCZ-associated genes (Mäki-Marttunen et al. 2017)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
Schiz.-linked gene effects on intrinsic single-neuron excitability (Maki-Marttunen et al. 2016)
epsp.mod
*
Other models using epsp.mod:
Biochemically detailed model of LTP and LTD in a cortical spine (Maki-Marttunen et al 2020)
Biochemically detailed model of LTP and LTD in a cortical spine (Maki-Marttunen et al 2020)
Biochemically detailed model of LTP and LTD in a cortical spine (Maki-Marttunen et al 2020)
Biochemically detailed model of LTP and LTD in a cortical spine (Maki-Marttunen et al 2020)
Biochemically detailed model of LTP and LTD in a cortical spine (Maki-Marttunen et al 2020)
Biochemically detailed model of LTP and LTD in a cortical spine (Maki-Marttunen et al 2020)
Dendritic Impedance in Neocortical L5 PT neurons (Kelley et al. accepted)
Glutamate mediated dendritic and somatic plateau potentials in cortical L5 pyr cells (Gao et al '20)
Impedance spectrum in cortical tissue: implications for LFP signal propagation (Miceli et al. 2017)
L5b PC model constrained for BAC firing and perisomatic current step firing (Hay et al., 2011)
Layer 5 Pyramidal Neuron (Shai et al., 2015)
Layer 5 Pyramidal Neuron (Shai et al., 2015)
Layer V pyramidal cell functions and schizophrenia genetics (Mäki-Marttunen et al 2019)
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
Pleiotropic effects of SCZ-associated genes (Mäki-Marttunen et al. 2017)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
Schiz.-linked gene effects on intrinsic single-neuron excitability (Maki-Marttunen et al. 2016)
Sensory-evoked responses of L5 pyramidal tract neurons (Egger et al 2020)
Ih.mod
*
Other models using Ih.mod:
Layer V pyramidal cell functions and schizophrenia genetics (Mäki-Marttunen et al 2019)
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
Pleiotropic effects of SCZ-associated genes (Mäki-Marttunen et al. 2017)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
Schiz.-linked gene effects on intrinsic single-neuron excitability (Maki-Marttunen et al. 2016)
Im.mod
*
Other models using Im.mod:
Layer V pyramidal cell functions and schizophrenia genetics (Mäki-Marttunen et al 2019)
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
Pleiotropic effects of SCZ-associated genes (Mäki-Marttunen et al. 2017)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
Schiz.-linked gene effects on intrinsic single-neuron excitability (Maki-Marttunen et al. 2016)
K_Pst.mod
*
Other models using K_Pst.mod:
Layer V pyramidal cell functions and schizophrenia genetics (Mäki-Marttunen et al 2019)
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
Pleiotropic effects of SCZ-associated genes (Mäki-Marttunen et al. 2017)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
Schiz.-linked gene effects on intrinsic single-neuron excitability (Maki-Marttunen et al. 2016)
K_Tst.mod
*
Other models using K_Tst.mod:
Layer V pyramidal cell functions and schizophrenia genetics (Mäki-Marttunen et al 2019)
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
Pleiotropic effects of SCZ-associated genes (Mäki-Marttunen et al. 2017)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
Schiz.-linked gene effects on intrinsic single-neuron excitability (Maki-Marttunen et al. 2016)
Nap_Et2.mod
*
Other models using Nap_Et2.mod:
Layer V pyramidal cell functions and schizophrenia genetics (Mäki-Marttunen et al 2019)
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
Pleiotropic effects of SCZ-associated genes (Mäki-Marttunen et al. 2017)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
NaTa_t.mod
*
Other models using NaTa_t.mod:
Layer V pyramidal cell functions and schizophrenia genetics (Mäki-Marttunen et al 2019)
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
Pleiotropic effects of SCZ-associated genes (Mäki-Marttunen et al. 2017)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
SK_E2.mod
*
Other models using SK_E2.mod:
Layer V pyramidal cell functions and schizophrenia genetics (Mäki-Marttunen et al 2019)
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
Pleiotropic effects of SCZ-associated genes (Mäki-Marttunen et al. 2017)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
Schiz.-linked gene effects on intrinsic single-neuron excitability (Maki-Marttunen et al. 2016)
SKv3_1.mod
*
Other models using SKv3_1.mod:
Layer V pyramidal cell functions and schizophrenia genetics (Mäki-Marttunen et al 2019)
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
Pleiotropic effects of SCZ-associated genes (Mäki-Marttunen et al. 2017)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
Schiz.-linked gene effects on intrinsic single-neuron excitability (Maki-Marttunen et al. 2016)
drawfits_withmids_combfs.py
drawfits_withmids_combfs_nseg5.py
drawmorphs.py
drawobjective_evolution.py
emoo.py
mytools.py
originalrun.sav
pars_withmids_combfs_1a.sav
pars_withmids_combfs_1a_0a.sav
pars_withmids_combfs_1a_0a_5a.sav
pars_withmids_combfs_1a_0a_5a_5a.sav
pars_withmids_combfs_final.sav
*
Other models using pars_withmids_combfs_final.sav:
Layer V pyramidal cell model with reduced morphology (Mäki-Marttunen et al 2018)
SCZ-associated variant effects on L5 pyr cell NN activity and delta osc. (Maki-Marttunen et al 2018)
pars_withmids_combfs_fixed_final.sav
screenshot.png
snmf_protocols.py
snmf_target.py
snmf_withmids_combfs.py
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