Hippocampus CA1: Simulations of LTP signaling pathways (Kim M et al. 2011)

 Download zip file 
Help downloading and running models
Accession:139655
This is a multi-compartmental, stochastic version of the Kim et al. 2010 paper. There are a few additional reactions, and some of the rate constants have been updated. It addresses the role of molecule anchoring in PKA dependent hippocampal LTP.
Reference:
1 . Kim M, Park AJ, Havekes R, Chay A, Guercio LA, Oliveira RF, Abel T, Blackwell KT (2011) Colocalization of protein kinase A with adenylyl cyclase enhances protein kinase A activity during induction of long-lasting long-term-potentiation. PLoS Comput Biol 7:e1002084 [PubMed]
Citations  Citation Browser
Model Information (Click on a link to find other models with that property)
Model Type: Synapse;
Brain Region(s)/Organism:
Cell Type(s): Hippocampus CA1 pyramidal GLU cell;
Channel(s):
Gap Junctions:
Receptor(s): Dopaminergic Receptor;
Gene(s):
Transmitter(s): Dopamine;
Simulation Environment: NeuroRD;
Model Concept(s): Long-term Synaptic Plasticity; Signaling pathways;
Implementer(s): Blackwell, Avrama [avrama at gmu.edu];
Search NeuronDB for information about:  Hippocampus CA1 pyramidal GLU cell; Dopaminergic Receptor; Dopamine;
nohup java -jar StocMeshMorphMol.jar ModelA_sp_0.5um.out-4tr-conc.txt ModelA_sp_0.5um.out-mesh.txt NewA_sp cAMP,PKAc,Ip35PP1,PKAcPDE4B,PKAcPDE4D,CKpCaMCa4,CKp,PP1,GluR1_S845,GluR1_S831,pPDE4B,pPDE4D

nohup java -jar StocMeshMorphMol.jar ModelB_sp_0.5um.out-4tr-conc.txt ModelB_sp_0.5um.out-mesh.txt NewB_sp cAMP,PKAc,Ip35PP1,PKAcPDE4B,PKAcPDE4D,CKpCaMCa4,CKp,PP1,GluR1_S845,GluR1_S831,pPDE4B,pPDE4D

nohup java -jar StocMeshMorphMol.jar ModelD_sp_0.5um.out-4tr-conc.txt ModelD_sp_0.5um.out-mesh.txt NewD_sp cAMP,PKAc,Ip35PP1,PKAcPDE4B,PKAcPDE4D,CKpCaMCa4,CKp,PP1,GluR1_S845,GluR1_S831,pPDE4B,pPDE4D

nohup java -jar StocMeshMorphMol.jar ModelE_sp_0.5um.out-4tr-conc.txt ModelE_sp_0.5um.out-mesh.txt NewE_sp cAMP,PKAc,Ip35PP1,PKAcPDE4B,PKAcPDE4D,CKpCaMCa4,CKp,PP1,GluR1_S845,GluR1_S831,pPDE4B,pPDE4D