Na channel mutations in the dentate gyrus (Thomas et al. 2009)

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Accession:123848
These are source files to generate the data in Figure 6 from "Mossy fiber sprouting interacts with sodium channel mutations to increase dentate gyrus excitability" Thomas EA, Reid CA, Petrou S, Epilepsia (2009)
Reference:
1 . Thomas EA, Reid CA, Petrou S (2009) Mossy fiber sprouting interacts with sodium channel mutations to increase dentate gyrus excitability. Epilepsia [PubMed]
Model Information (Click on a link to find other models with that property)
Model Type: Realistic Network;
Brain Region(s)/Organism:
Cell Type(s): Dentate gyrus granule cell; Dentate gyrus mossy cell; Dentate gyrus basket cell; Dentate gyrus hilar cell;
Channel(s): I Na,t; I A; I K; I K,leak; I K,Ca; I Calcium;
Gap Junctions:
Receptor(s): GabaA; AMPA;
Gene(s):
Transmitter(s): Gaba; Glutamate;
Simulation Environment: parplex;
Model Concept(s): Ion Channel Kinetics; Epilepsy;
Implementer(s): Thomas, Evan [evan at evan-thomas.net];
Search NeuronDB for information about:  Dentate gyrus granule cell; GabaA; AMPA; I Na,t; I A; I K; I K,leak; I K,Ca; I Calcium; Gaba; Glutamate;
   
These are source files to generate the data in Figure 6 from
"Mossy fiber sprouting interacts with sodium channel
mutations to increase dentate gyrus excitability" Thomas EA, Reid CA, Petrou S,
Epilepsia (2009)

Intructions:
1) Build and install parplex (see Readme in the parplex directory)
2) python aradi.py
3) python mkdll.py Exp2Syn.c
4) python fig6.py

This will produce a number of ap*.dat. The columns of these files are:
Cellno APtime Celltype. You can use the enclosed Matlab scripts to plot them.

Any questions? Email me evan@evan-thomas.net.

Thomas EA, Reid CA, Petrou S (2009) Mossy fiber sprouting interacts with sodium channel mutations to increase dentate gyrus excitability. Epilepsia[PubMed]

References and models cited by this paper

References and models that cite this paper

Babb TL, Kupfer WR, Pretorius JK, Crandall PH, Levesque MF (1991) Synaptic reorganization by mossy fibers in human epileptic fascia dentata. Neuroscience 42:351-63 [PubMed]

Chiu C, Reid CA, Tan HO, Davies PJ, Single FN, Koukoulas I, Berkovic SF, Tan SS, Sprengel R, (2008) Developmental impact of a familial GABAA receptor epilepsy mutation. Ann Neurol 64:284-93 [PubMed]

de Lanerolle NC, Kim JH, Robbins RJ, Spencer DD (1989) Hippocampal interneuron loss and plasticity in human temporal lobe epilepsy. Brain Res 495:387-95 [PubMed]

Dudek FE, Sutula TP (2007) Epileptogenesis in the dentate gyrus: a critical perspective. Prog Brain Res 163:755-73 [PubMed]

Dyhrfjeld-Johnsen J, Santhakumar V, Morgan RJ, Huerta R, Tsimring L, Soltesz I (2007) Topological determinants of epileptogenesis in large-scale structural and functional models of the dentate gyrus derived from experimental data. J Neurophysiol 97:1566-87 [Journal] [PubMed]

  • Dentate gyrus (Morgan et al. 2007, 2008, Santhakumar et al. 2005, Dyhrfjeld-Johnsen et al. 2007) [Model]

Fellous JM, Rudolph M, Destexhe A, Sejnowski TJ (2003) Synaptic background noise controls the input-output characteristics of single cells in an in vitro model of in vivo activity. Neuroscience 122:811-29 [PubMed]

Heinemann U, Beck H, Dreier JP, Ficker E, Stabel J, Zhang CL (1992) The dentate gyrus as a regulated gate for the propagation of epileptiform activity. Epilepsy Res Suppl 7:273-80 [PubMed]

Hines M (1984) Efficient computation of branched nerve equations. Int J Biomed Comput 15:69-76 [PubMed]

Houser CR, Miyashiro JE, Swartz BE, Walsh GO, Rich JR, Delgado-Escueta AV (1990) Altered patterns of dynorphin immunoreactivity suggest mossy fiber reorganization in human hippocampal epilepsy. J Neurosci 10:267-82 [PubMed]

Howard AL, Neu A, Morgan RJ, Echegoyen JC, Soltesz I (2007) Opposing modifications in intrinsic currents and synaptic inputs in post-traumatic mossy cells: evidence for single-cell homeostasis in a hyperexcitable network. J Neurophysiol 97:2394-409 [Journal] [PubMed]

Kananura C, Haug K, Sander T, Runge U, Gu W, Hallmann K, Rebstock J, Heils A, Steinlein OK (2002) A splice-site mutation in GABRG2 associated with childhood absence epilepsy and febrile convulsions. Arch Neurol 59:1137-41 [PubMed]

Lothman EW, Stringer JL, Bertram EH (1992) The dentate gyrus as a control point for seizures in the hippocampus and beyond. Epilepsy Res Suppl 7:301-13 [PubMed]

Lytton WW (2008) Computer modelling of epilepsy. Nat Rev Neurosci 9:626-37 [Journal] [PubMed]

Mascagni MV, Sherman AS (1998) Numerical methods for neuronal modelling. Methods in Neuronal Modeling From Synapses to Networks, 2nd Edition, Koch C:Segev I, ed. pp.569

Morgan RJ, Soltesz I (2008) Nonrandom connectivity of the epileptic dentate gyrus predicts a major role for neuronal hubs in seizures. Proc Natl Acad Sci U S A 105:6179-84 [Journal] [PubMed]

  • Dentate gyrus (Morgan et al. 2007, 2008, Santhakumar et al. 2005, Dyhrfjeld-Johnsen et al. 2007) [Model]

Ogiwara I, Miyamoto H, Morita N, Atapour N, Mazaki E, Inoue I, Takeuchi T, Itohara S, Yanagaw (2007) Na(v)1.1 localizes to axons of parvalbumin-positive inhibitory interneurons: a circuit basis for epileptic seizures in mice carrying an Scn1a gene mutation. J Neurosci 27:5903-14 [PubMed]

Press WH, Flannery BP, Teukolsky SA, Vetterling WT (1988) Numerical recipes in C: the art of scientific computing

Reid CA, Berkovic SF, Petrou S (2009) Mechanisms of human inherited epilepsies. Prog Neurobiol 87:41-57 [PubMed]

Santhakumar V, Aradi I, Soltesz I (2005) Role of mossy fiber sprouting and mossy cell loss in hyperexcitability: a network model of the dentate gyrus incorporating cell types and axonal topography. J Neurophysiol 93:437-53 [Journal] [PubMed]

  • Dentate gyrus network model (Santhakumar et al 2005) [Model]
  • Dentate gyrus (Morgan et al. 2007, 2008, Santhakumar et al. 2005, Dyhrfjeld-Johnsen et al. 2007) [Model]

Santhakumar V, Ratzliff AD, Jeng J, Toth Z, Soltesz I (2001) Long-term hyperexcitability in the hippocampus after experimental head trauma. Ann Neurol 50:708-17 [PubMed]

Scheffer IE, Harkin LA, Grinton BE, Dibbens LM, Turner SJ, Zielinski MA, Xu R, Jackson G, Ada (2007) Temporal lobe epilepsy and GEFS+ phenotypes associated with SCN1B mutations. Brain 130:100-9 [PubMed]

Spampanato J, Aradi I, Soltesz I, Goldin AL (2004) Increased neuronal firing in computer simulations of sodium channel mutations that cause generalized epilepsy with febrile seizures plus. J Neurophysiol 91:2040-50 [Journal] [PubMed]

  • Sodium channel mutations causing generalized epilepsy with febrile seizures + (Barela et al. 2006) [Model]

Spampanato J, Escayg A, Meisler MH, Goldin AL (2001) Functional effects of two voltage-gated sodium channel mutations that cause generalized epilepsy with febrile seizures plus type 2. J Neurosci 21:7481-90 [PubMed]

Staley KJ, Otis TS, Mody I (1992) Membrane properties of dentate gyrus granule cells: comparison of sharp microelectrode and whole-cell recordings. J Neurophysiol 67:1346-58 [Journal] [PubMed]

Stringer JL, Lothman EW (1992) Bilateral maximal dentate activation is critical for the appearance of an afterdischarge in the dentate gyrus. Neuroscience 46:309-14 [PubMed]

Sutula TP, Hermann B (1999) Progression in mesial temporal lobe epilepsy. Ann Neurol 45:553-6 [PubMed]

Tan HO, Reid CA, Single FN, Davies PJ, Chiu C, Murphy S, Clarke AL, Dibbens L, Krestel H, Mul (2007) Reduced cortical inhibition in a mouse model of familial childhood absence epilepsy. Proc Natl Acad Sci U S A 104:17536-41 [PubMed]

Thomas EA (2000) A parallel algorithm for simulation of large neural networks. J Neurosci Methods 98:123-34 [PubMed]

Thomas EA, Petrou S (2008) Case for realistic modeling in understanding seizures. Expert Rev Neurother 8:1771-3 [Journal] [PubMed]

Thomas EA, Xu R, Petrou S (2007) Computational analysis of the R85C and R85H epilepsy mutations in Na+ channel beta1 subunits. Neuroscience 147:1034-46 [PubMed]

Wallace RH, Marini C, Petrou S, Harkin LA, Bowser DN, Panchal RG, Williams DA, Sutherland GR, (2001) Mutant GABA(A) receptor gamma2-subunit in childhood absence epilepsy and febrile seizures. Nat Genet 28:49-52 [PubMed]

Xu R, Thomas EA, Gazina EV, Richards KL, Quick M, Wallace RH, Harkin LA, Heron SE, Berkovic S (2007) Generalized epilepsy with febrile seizures plus-associated sodium channel beta1 subunit mutations severely reduce beta subunit-mediated modulation of sodium channel function. Neuroscience 148:164-74 [PubMed]

Yu FH, Mantegazza M, Westenbroek RE, Robbins CA, Kalume F, Burton KA, Spain WJ, McKnight GS, (2006) Reduced sodium current in GABAergic interneurons in a mouse model of severe myoclonic epilepsy in infancy. Nat Neurosci 9:1142-9 [PubMed]

Bezaire MJ, Raikov I, Burk K, Vyas D, Soltesz I (2016) Interneuronal mechanisms of hippocampal theta oscillation in a full-scale model of the rodent CA1 circuit. Elife [Journal] [PubMed]

  • Hippocampal CA1 NN with spontaneous theta, gamma: full scale & network clamp (Bezaire et al 2016) [Model]

Gurkiewicz M, Korngreen A, Waxman SG, Lampert A (2011) Kinetic Modeling of Nav1.7 Provides Insight Into Erythromelalgia-associated F1449V Mutation. J Neurophysiol [Journal] [PubMed]

  • HMM of Nav1.7 WT and F1449V (Gurkiewicz et al. 2011) [Model]

Tejada J, Arisi GM, Garci­a-Cairasco N, Roque AC (2012) Morphological alterations in newly born dentate gyrus granule cells that emerge after status epilepticus contribute to make them less excitable. PLoS One 7:e40726-78 [Journal] [PubMed]

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Thomas EA, Petrou S (2013) Network-specific mechanisms may explain the paradoxical effects of carbamazepine and phenytoin. Epilepsia 54(7):1195-202 [Journal] [PubMed]

  • State dependent drug binding to sodium channels in the dentate gyrus (Thomas & Petrou 2013) [Model]

Thomas EA, Reid CA, Berkovic SF, Petrou S (2009) Prediction by Modeling That Epilepsy May Be Caused by Very Small Functional Changes in Ion Channels Arch Neurol. 66(10):1225-1232 [Journal] [PubMed]

  • Epilepsy may be caused by very small functional changes in ion channels (Thomas et al. 2009) [Model]

Yim MY, Hanuschkin A, Wolfart J (2015) Intrinsic rescaling of granule cells restores pattern separation ability of a dentate gyrus network model during epileptic hyperexcitability. Hippocampus 25:297-308 [Journal] [PubMed]

  • Dentate gyrus network model pattern separation and granule cell scaling in epilepsy (Yim et al 2015) [Model]

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