Theta phase precession in a model CA3 place cell (Baker and Olds 2007)

 Download zip file 
Help downloading and running models
Accession:98003
"... The present study concerns a neurobiologically based computational model of the emergence of theta phase precession in which the responses of a single model CA3 pyramidal cell are examined in the context of stimulation by realistic afferent spike trains including those of place cells in entorhinal cortex, dentate gyrus, and other CA3 pyramidal cells. Spike-timing dependent plasticity in the model CA3 pyramidal cell leads to a spatially correlated associational synaptic drive that subsequently creates a spatially asymmetric expansion of the model cell’s place field. ... Through selective manipulations of the model it is possible to decompose theta phase precession in CA3 into the separate contributing factors of inheritance from upstream afferents in the dentate gyrus and entorhinal cortex, the interaction of synaptically controlled increasing afferent drive with phasic inhibition, and the theta phase difference between dentate gyrus granule cell and CA3 pyramidal cell activity."
Reference:
1 . Baker JL, Olds JL (2007) Theta phase precession emerges from a hybrid computational model of a CA3 place cell. Cogn Neurodyn 1:237-48 [PubMed]
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:
Cell Type(s): Hippocampus CA3 pyramidal GLU cell;
Channel(s): I Na,p; I Na,t; I L high threshold; I N; I T low threshold; I A; I K,leak; I M; I h; I K,Ca; I Sodium; I Calcium; I Mixed; I Potassium;
Gap Junctions:
Receptor(s): GabaA; GabaB; AMPA; NMDA;
Gene(s): NR2A GRIN2A;
Transmitter(s): Acetylcholine; Gaba; Glutamate;
Simulation Environment: C or C++ program; MATLAB;
Model Concept(s): Oscillations; Simplified Models; Active Dendrites; Detailed Neuronal Models; Synaptic Plasticity; Short-term Synaptic Plasticity; Long-term Synaptic Plasticity; Methods; Learning; Reinforcement Learning; STDP; Place cell/field; Calcium dynamics;
Implementer(s): Baker, John L [jbakerb at gmu.edu];
Search NeuronDB for information about:  Hippocampus CA3 pyramidal GLU cell; GabaA; GabaB; AMPA; NMDA; I Na,p; I Na,t; I L high threshold; I N; I T low threshold; I A; I K,leak; I M; I h; I K,Ca; I Sodium; I Calcium; I Mixed; I Potassium; Acetylcholine; Gaba; Glutamate;
/
BNSF_1_0
Rallpack
makefile
Rallpack.dsp
Rallpack.dsw
Rallpack.opt
                            
# Make file for generating rallpack.exe

# This is a straightforward make file that can
# be customized to meet system requirements.
# Linux is used as an example system here.

# A Program Development Environment (PDE) will greatly
# simplify using BNSF and will in many cases create its
# own version of a makefile instead of using this file.

# Preliminary defines for compile options.
CPP = g++
CPPFLAGS = -O -I../Include -I../Include/Rallpack
LD = g++
LDFLAGS = 

# Define a list of all the object modules generated
OBJS= \
	bnsf_base.o \
	bnsf_liaf.o \
	bnsf_math.o \
	bnsf_math_3rd_party.o \
	bnsf_nmod.o \
	bnsf_sim.o \
	ionchan_k_rallpack.o \
	ionchan_na_rallpack.o \
	neuron_rallpack.o \
	test_rallpack.o \
	test_rallpack1.o \
	test_rallpack2.o \
	test_rallpack3.o \
	test_rallpack_ab.o

# Housekeeping dependencies
all : rallpack.exe

clean :
	rm -f $(OBJS) rallpack.exe


# Link the main module
rallpack.exe : $(OBJS)
	$(LD) $(LDFLAGS) $(OBJS) -o rallpack.exe 


# Compile source into object modules
bnsf_base.o : \
	../Src/bnsf_base.cpp \
	../Include/bnsf_base.h
	$(CPP) $(CPPFLAGS) -c ../Src/bnsf_base.cpp

bnsf_liaf.o : \
	../Src/bnsf_liaf.cpp \
	../Include/bnsf_base.h\
	../Include/bnsf_liaf.h\
	../Include/bnsf_math.h\
	../Include/bnsf_nmod.h\
	../Include/bnsf_sim.h
	$(CPP) $(CPPFLAGS) -c ../Src/bnsf_liaf.cpp

bnsf_math.o : \
	../Src/bnsf_math.cpp\
	../Include/bnsf_base.h\
	../Include/bnsf_math.h
	$(CPP) $(CPPFLAGS) -c ../Src/bnsf_math.cpp

bnsf_math_3rd_party.o : \
	../Src/bnsf_math_3rd_party.cpp\
	../Include/bnsf_base.h\
	../Include/bnsf_math.h
	$(CPP) $(CPPFLAGS) -c ../Src/bnsf_math_3rd_party.cpp

bnsf_nmod.o : \
	../Src/bnsf_nmod.cpp\
	../Include/bnsf_base.h\
	../Include/bnsf_math.h\
	../Include/bnsf_nmod.h\
	../Include/bnsf_sim.h
	$(CPP) $(CPPFLAGS) -c ../Src/bnsf_nmod.cpp

bnsf_sim.o : \
	../Src/bnsf_sim.cpp\
	../Include/bnsf_base.h\
	../Include/bnsf_math.h\
	../Include/bnsf_sim.h
	$(CPP) $(CPPFLAGS) -c ../Src/bnsf_sim.cpp

ionchan_k_rallpack.o : \
	../Src/Rallpack/ionchan_k_rallpack.cpp\
	../Include/bnsf.h\
	../Include/bnsf_base.h\
	../Include/bnsf_math.h\
	../Include/bnsf_nmod.h\
	../Include/bnsf_sim.h\
	../Include/Rallpack/ionchan_k_rallpack.h
	$(CPP) $(CPPFLAGS) -c ../Src/Rallpack/ionchan_k_rallpack.cpp

ionchan_na_rallpack.o : \
	../Src/Rallpack/ionchan_na_rallpack.cpp\
	../Include/bnsf.h\
	../Include/bnsf_base.h\
	../Include/bnsf_math.h\
	../Include/bnsf_nmod.h\
	../Include/bnsf_sim.h\
	../Include/Rallpack/ionchan_na_rallpack.h
	$(CPP) $(CPPFLAGS) -c ../Src/Rallpack/ionchan_na_rallpack.cpp

neuron_rallpack.o : \
	../Src/Rallpack/neuron_rallpack.cpp\
	../Include/bnsf.h\
	../Include/bnsf_base.h\
	../Include/bnsf_math.h\
	../Include/bnsf_nmod.h\
	../Include/bnsf_sim.h\
	../Include/Rallpack/ionchan_k_rallpack.h\
	../Include/Rallpack/ionchan_na_rallpack.h\
	../Include/Rallpack/neuron_rallpack.h
	$(CPP) $(CPPFLAGS) -c ../Src/Rallpack/neuron_rallpack.cpp

test_rallpack1.o : \
	../Testcases/test_rallpack1.cpp\
	../Include/bnsf.h\
	../Include/bnsf_base.h\
	../Include/bnsf_math.h\
	../Include/bnsf_nmod.h\
	../Include/bnsf_sim.h\
	../Include/Rallpack/ionchan_k_rallpack.h\
	../Include/Rallpack/ionchan_na_rallpack.h\
	../Include/Rallpack/neuron_rallpack.h
	$(CPP) $(CPPFLAGS) -c ../Testcases/test_rallpack1.cpp

test_rallpack2.o : \
	../Testcases/test_rallpack2.cpp\
	../Include/bnsf.h\
	../Include/bnsf_base.h\
	../Include/bnsf_math.h\
	../Include/bnsf_nmod.h\
	../Include/bnsf_sim.h\
	../Include/Rallpack/ionchan_k_rallpack.h\
	../Include/Rallpack/ionchan_na_rallpack.h\
	../Include/Rallpack/neuron_rallpack.h
	$(CPP) $(CPPFLAGS) -c ../Testcases/test_rallpack2.cpp

test_rallpack3.o : \
	../Testcases/test_rallpack3.cpp\
	../Include/bnsf.h\
	../Include/bnsf_base.h\
	../Include/bnsf_math.h\
	../Include/bnsf_nmod.h\
	../Include/bnsf_sim.h\
	../Include/Rallpack/ionchan_k_rallpack.h\
	../Include/Rallpack/ionchan_na_rallpack.h\
	../Include/Rallpack/neuron_rallpack.h
	$(CPP) $(CPPFLAGS) -c ../Testcases/test_rallpack3.cpp	

test_rallpack_ab.o : \
	../Testcases/test_rallpack_ab.cpp\
	../Include/bnsf.h\
	../Include/bnsf_base.h\
	../Include/bnsf_math.h\
	../Include/bnsf_nmod.h\
	../Include/bnsf_sim.h\
	../Include/Rallpack/ionchan_k_rallpack.h\
	../Include/Rallpack/ionchan_na_rallpack.h
	$(CPP) $(CPPFLAGS) -c ../Testcases/test_rallpack_ab.cpp

test_rallpack.o : ../Testcases/test_rallpack.cpp
	$(CPP) $(CPPFLAGS) -c ../Testcases/test_rallpack.cpp

# end makefile for rallpack.exe

Loading data, please wait...