Publications about NEURON

Awile, O., Kumbhar, P., Cornu, N., Dura-Bernal, S., King, J. G., Lupton, O., Magkanaris, I., McDougal, R. A., Newton, A. J. H., Pereira, F., Săvulescu, A., Carnevale, N. T., Lytton, W. W., Hines, M. L., Schürmann, F. (2022). Modernizing the NEURON Simulator for Sustainability, Portability, and Performance. bioRxiv. doi:10.1101/2022.03.03.482816

McDougal, R. A., Conte, C., Eggleston, L., Newton, A. J. H., Galijasevic, H. (2022). Efficient simulation of 3D reaction-diffusion in models of neurons and networks. bioRxiv. doi:10.1101/2022.01.01.474683

Hines M., Carnevale T., McDougal R.A. NEURON Simulation Environment (2019). In: Jaeger D., Jung R. (eds) Encyclopedia of Computational Neuroscience. Springer, New York, NY. doi:10.1007/978-1-4614-7320-6_795-2

Newton, A. J., McDougal, R. A., Hines, M. L., Lytton, W. W. (2018). Using NEURON for Reaction-Diffusion modeling of extracellular dynamics. Frontiers in Neuroinformatics, 12, 41. doi:10.3389/fninf.2018.00041

Lytton, W. W., Seidenstein, A. H., Dura-Bernal, S., McDougal, R. A., Schürmann, F., Hines, M. L. (2016). Simulation neurotechnologies for advancing brain research: parallelizing large networks in NEURON. Neural computation, 28(10), 2063-2090.

McDougal RA, Hines ML, Lytton WW. Reaction-diffusion in the NEURON simulator (2013). Frontiers in Neuroinformatics. 7:28. doi:10.3389/fninf.2013.00028

Hines, M., Kumar, S., Schürmann, F. (2011). Comparison of neuronal spike exchange methods on a Blue Gene/P supercomputer. Frontiers in computational neuroscience, 5, 49. doi:10.3389/fncom.2011.00049

Kumar, S., Heidelberger, P., Chen, D., Hines, M. (2010). Optimization of applications with non-blocking neighborhood collectives via multisends on the blue gene/p supercomputer. In 2010 IEEE International Symposium on Parallel & Distributed Processing (IPDPS) (pp. 1-11). IEEE. doi:10.1109/IPDPS.2010.5470407

Hines, M., Davison, A. P., Muller, E. (2009). NEURON and Python. Frontiers in neuroinformatics, 3, 1. doi:10.3389/neuro.11.001.2009

Davison, A. P., Hines, M., Muller, E. (2009). Trends in programming languages for neuroscience simulations. Frontiers in neuroscience, 3, 36. doi:10.3389/neuro.01.036.2009

Hines, M. L., Markram, H., Schürmann, F. (2008). Fully implicit parallel simulation of single neurons. Journal of computational neuroscience, 25(3), 439-448. doi:10.1007/s10827-008-0087-5

Hines, M. L., Eichner, H., Schürmann, F. (2008). Neuron splitting in compute-bound parallel network simulations enables runtime scaling with twice as many processors. Journal of computational neuroscience, 25(1), 203-210. doi:10.1007/s10827-007-0073-3

Carnevale NT, Hines M. (2008). The NEURON simulation environment in epilepsy research. In Computational Neuroscience in Epilepsy (pp. 18-33). Academic Press. doi:/10.1016/B978-012373649-9.50005-3

Lytton, W. W., Stewart, M., Hines, M. (2008). Simulation of large networks: technique and progress. In Computational neuroscience in epilepsy (pp. 3-17). Academic Press. doi:10.1016/B978-012373649-9.50004-1

Carnevale NT, Hines ML. (2008). Translating network models to parallel hardware in NEURON. Journal of neuroscience methods, 169(2), 425. doi:10.1016/j.jneumeth.2007.09.010

Cannon, R. C., Gewaltig, M. O., Gleeson, P., Bhalla, U. S., Cornelis, H., Hines, M. L., … De Schutter, E. (2007). Interoperability of neuroscience modeling software: current status and future directions. Neuroinformatics, 5(2), 127-138. doi:10.1007/s12021-007-0004-5

Hines ML, Morse TM, Carnevale NT (2007). Model structure analysis in NEURON (2007). In Crasto CJ. (Ed) Methods in Molecular Biology, vol 401: Neuroinformatics. Humana Press Inc., Totowa, NJ. doi:10.1007/978-1-59745-520-6

Brette, R., Rudolph, M., Carnevale, T., Hines, M., Beeman, D., Bower, J. M., … Destexhe, A. (2007). Simulation of networks of spiking neurons: a review of tools and strategies. Journal of computational neuroscience, 23(3), 349-398. doi:10.1007/s10827-007-0038-6

Carnevale NT, Hines ML. (2006). The NEURON book. Cambridge University Press. doi:10.1017/CBO9780511541612

Migliore, M., Cannia, C., Lytton, W. W., Markram, H., Hines, M. L. (2006). Parallel network simulations with NEURON. Journal of computational neuroscience, 21(2), 119-129. doi:10.1007/s10827-006-7949-5

Lytton, W. W., Hines, M. L. (2005). Independent variable time-step integration of individual neurons for network simulations. Neural computation, 17(4), 903-921. doi:10.1162/0899766053429453

Hines M, Carnevale N. (2005). Recent developments in neuron. Brains, Minds and Media, 1(2).

Introduces: The Channel Builder, The Cell Builder, ModelView, and the Import3D tool.

Hines ML, Carnevale NT. (2004). Discrete event simulation in the NEURON environment. Neurocomputing, 58, 1117-1122. doi:10.1016/j.neucom.2004.01.175

Hines, M. L., & Carnevale, N. (2003). The NEURON simulation environment. In: The Handbook of Brain Theory and Neural Networks. MIT Press, Cambridge, MA, USA.

Hines ML, Carnevale NT. (2001). NEURON: a tool for neuroscientists. The neuroscientist, 7(2), 123-135. doi:10.1177/107385840100700207

Hines ML, Carnevale NT. (2000). Expanding NEURON’s repertoire of mechanisms with NMODL. Neural computation, 12(5), 995-1007. doi:10.1162/089976600300015475

Shepherd, G. M., Mirsky, J. S., Healy, M. D., Singer, M. S., Skoufos, E., Hines, M. S., … Miller, P. L. (1998). The Human Brain Project: neuroinformatics tools for integrating, searching and modeling multidisciplinary neuroscience data. Trends in neurosciences, 21(11), 460-468. doi:10.1016/S0166-2236(98)01300-9

Hines, M. L. (1998). The neurosimulator NEURON. Methods in neuronal modeling: from synapses to networks (Koch C, Segev I, eds), 121-136. MIT Press. Cambridge, MA.

Hines ML, Carnevale NT. (1997). The NEURON simulation environment. Neural computation, 9(6), 1179-1209. doi:10.1162/neco.1997.9.6.1179

Lytton, W. W., Contreras, D., Destexhe, A., & Steriade, M. (1997). Dynamic interactions determine partial thalamic quiescence in a computer network model of spike-and-wave seizures. Journal of Neurophysiology, 77(4), 1679-1696. doi:10.1152/jn.1997.77.4.1679

Lytton WW. (1997). Brain organization: from molecules to parallel processing. In Contemporary Behavioral Neurology, M. R. Trimble and J. L. Cummings, eds., pp. 5–28. Butterworth-Heinemann, Newton, MA.

Hines M. (1994). The NEURON simulation program. In: Neural network simulation environments (pp. 147-163). Springer, Boston, MA.

Hines M. (1993). NEURON – a program for simulation of nerve equations. In: Eeckman F.H. (ed) Neural Systems: Analysis and Modeling. Springer, Boston, MA. doi:10.1007/978-1-4615-3560-7_11

Hines M. (1989). A program for simulation of nerve equations with branching geometries. International journal of bio-medical computing, 24(1), 55-68. doi:10.1016/0020-7101(89)90007-X

Hines, M. (1984). Efficient computation of branched nerve equations. International journal of bio-medical computing, 15(1), 69-76. doi:10.1016/0020-7101(84)90008-4