Multi-level network modeling of cortical dynamics built on the GENESIS environment
Detailed network modeling integrating knowledge from different biological levels of description is important for understanding brain function. To facilitate modeling based on collated experimental connectivity data, we implemented tools in the GENESIS simulation environment for automatic generation,...
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| Published in: | Neurocomputing (Amsterdam) Vol. 44; pp. 863 - 868 |
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| Main Authors: | , , , , |
| Format: | Journal Article |
| Language: | English |
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Elsevier B.V
2002
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| Abstract | Detailed network modeling integrating knowledge from different biological levels of description is important for understanding brain function. To facilitate modeling based on collated experimental connectivity data, we implemented tools in the GENESIS simulation environment for automatic generation, visualization and modification of network models with units representing cells, layers or cortical areas. As a further integrative step, representations from different modeling approaches, multicompartmental cells and integrate-and-fire units, could be interfaced in the same model. Development of standardized model description languages would facilitate future integrative efforts, allowing easy combination of desired models and tools from different simulators in one modeling study. |
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| AbstractList | Detailed network modeling integrating knowledge from different biological levels of description is important for understanding brain function. To facilitate modeling based on collated experimental connectivity data, we implemented tools in the GENESIS simulation environment for automatic generation, visualization and modification of network models with units representing cells, layers or cortical areas. As a further integrative step, representations from different modeling approaches, multicompartmental cells and integrate-and-fire units, could be interfaced in the same model. Development of standardized model description languages would facilitate future integrative efforts, allowing easy combination of desired models and tools from different simulators in one modeling study. copyright 2002 Elsevier Science B.V. All rights reserved. Detailed network modeling integrating knowledge from different biological levels of description is important for understanding brain function. To facilitate modeling based on collated experimental connectivity data, we implemented tools in the GENESIS simulation environment for automatic generation, visualization and modification of network models with units representing cells, layers or cortical areas. As a further integrative step, representations from different modeling approaches, multicompartmental cells and integrate-and-fire units, could be interfaced in the same model. Development of standardized model description languages would facilitate future integrative efforts, allowing easy combination of desired models and tools from different simulators in one modeling study. |
| Author | Kötter, R Luhmann, H.J Nielsen, P Johnsen, J.D Northoff, G |
| Author_xml | – sequence: 1 givenname: J.D surname: -Johnsen fullname: -Johnsen, J.D email: dyhrfjel@uni-dusseldorf.de organization: C. & O. Vogt Brain Research Institute, 40225 Düsseldorf, Germany – sequence: 2 givenname: P surname: Nielsen fullname: Nielsen, P email: pern@fys.ku.dk organization: Niels Bohr Institute of Astrophysics, Physics & Geophysics, University of Copenhagen, DK-2100 Copenhagen Ø, Denmark – sequence: 3 givenname: H.J surname: Luhmann fullname: Luhmann, H.J email: luhmann@uni-dusseldorf.de organization: Institute of Neurophysiology, Heinrich Heine University, D-40225 Düsseldorf, Germany – sequence: 4 givenname: G surname: Northoff fullname: Northoff, G email: gnorthof@caregroup.harvard.edu organization: Department of Psychiatry, Otto von Guericke University, D-39120 Magdeburg, Germany – sequence: 5 givenname: R surname: Kötter fullname: Kötter, R email: rk@hirn.uni-dusseldorf.de organization: C. & O. Vogt Brain Research Institute, 40225 Düsseldorf, Germany |
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| Cites_doi | 10.1152/jn.1998.79.6.3272 10.1146/annurev.neuro.21.1.47 10.1093/cercor/1.1.1-a 10.1162/neco.1991.3.1.19 10.1385/1-59259-275-9:359 10.1113/jphysiol.1991.sp018733 10.1038/81444 10.1098/rstb.2001.0910 |
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| Copyright | 2002 Elsevier Science B.V. |
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| References | Goddard, Hucka, Howell, Cornelis, Shankar, Beeman (BIB5) 2001; 356 Koch, Segev (BIB6) 2000; 3 Callaway (BIB2) 1998; 21 Schmolesky, Wang, Hanes, Thompson, Leutgeb, Schall, Leventhal (BIB8) 1998; 79 Bush, Douglas (BIB1) 1991; 3 Felleman, Van Essen (BIB4) 1991; 1 R. Kötter, P. Nielsen, J.D.-Johnsen, F.T. Sommer, G. Northoff, Multilevel neuron and network modeling in computational neuroanatomy, in: G. Ascoli (Ed.), Computational Neuroanatomy: Principles and Methods, Humana, Totowa, NJ, 2002. Douglas, Martin (BIB3) 1991; 440 10.1016/S0925-2312(02)00484-8_BIB7 Bush (10.1016/S0925-2312(02)00484-8_BIB1) 1991; 3 Goddard (10.1016/S0925-2312(02)00484-8_BIB5) 2001; 356 Felleman (10.1016/S0925-2312(02)00484-8_BIB4) 1991; 1 Douglas (10.1016/S0925-2312(02)00484-8_BIB3) 1991; 440 Callaway (10.1016/S0925-2312(02)00484-8_BIB2) 1998; 21 Schmolesky (10.1016/S0925-2312(02)00484-8_BIB8) 1998; 79 Koch (10.1016/S0925-2312(02)00484-8_BIB6) 2000; 3 |
| References_xml | – volume: 21 start-page: 47 year: 1998 end-page: 74 ident: BIB2 article-title: Local circuits in primary visual cortex of the macaque monkey publication-title: Annu. Rev. Neurosci. contributor: fullname: Callaway – volume: 79 start-page: 3272 year: 1998 end-page: 3278 ident: BIB8 article-title: Signal timing across the macaque visual system publication-title: J. Neurophysiol. contributor: fullname: Leventhal – volume: 3 start-page: 19 year: 1991 end-page: 30 ident: BIB1 article-title: Synchronization of bursting action potential discharge in a model network of neocortical neurons publication-title: Neural Comput. contributor: fullname: Douglas – volume: 356 start-page: 1209 year: 2001 end-page: 1228 ident: BIB5 article-title: Towards NeuroML publication-title: Philos. Trans. R. Soc. Lond. B Biol.Sci. contributor: fullname: Beeman – volume: 1 start-page: 1 year: 1991 end-page: 47 ident: BIB4 article-title: Distributed hierarchical processing in the primate cerebral cortex publication-title: Cereb. Cortex contributor: fullname: Van Essen – volume: 3 start-page: 1171 year: 2000 end-page: 1177 ident: BIB6 article-title: The role of single neurons in information processing publication-title: Nat. Neurosci. contributor: fullname: Segev – volume: 440 start-page: 735 year: 1991 end-page: 769 ident: BIB3 article-title: A functional microcircuit for cat visual cortex publication-title: J. Physiol. contributor: fullname: Martin – volume: 79 start-page: 3272 year: 1998 ident: 10.1016/S0925-2312(02)00484-8_BIB8 article-title: Signal timing across the macaque visual system publication-title: J. Neurophysiol. doi: 10.1152/jn.1998.79.6.3272 contributor: fullname: Schmolesky – volume: 21 start-page: 47 year: 1998 ident: 10.1016/S0925-2312(02)00484-8_BIB2 article-title: Local circuits in primary visual cortex of the macaque monkey publication-title: Annu. Rev. Neurosci. doi: 10.1146/annurev.neuro.21.1.47 contributor: fullname: Callaway – volume: 1 start-page: 1 year: 1991 ident: 10.1016/S0925-2312(02)00484-8_BIB4 article-title: Distributed hierarchical processing in the primate cerebral cortex publication-title: Cereb. Cortex doi: 10.1093/cercor/1.1.1-a contributor: fullname: Felleman – volume: 3 start-page: 19 year: 1991 ident: 10.1016/S0925-2312(02)00484-8_BIB1 article-title: Synchronization of bursting action potential discharge in a model network of neocortical neurons publication-title: Neural Comput. doi: 10.1162/neco.1991.3.1.19 contributor: fullname: Bush – ident: 10.1016/S0925-2312(02)00484-8_BIB7 doi: 10.1385/1-59259-275-9:359 – volume: 440 start-page: 735 year: 1991 ident: 10.1016/S0925-2312(02)00484-8_BIB3 article-title: A functional microcircuit for cat visual cortex publication-title: J. Physiol. doi: 10.1113/jphysiol.1991.sp018733 contributor: fullname: Douglas – volume: 3 start-page: 1171 issue: Suppl year: 2000 ident: 10.1016/S0925-2312(02)00484-8_BIB6 article-title: The role of single neurons in information processing publication-title: Nat. Neurosci. doi: 10.1038/81444 contributor: fullname: Koch – volume: 356 start-page: 1209 year: 2001 ident: 10.1016/S0925-2312(02)00484-8_BIB5 article-title: Towards NeuroML publication-title: Philos. Trans. R. Soc. Lond. B Biol.Sci. doi: 10.1098/rstb.2001.0910 contributor: fullname: Goddard |
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| Title | Multi-level network modeling of cortical dynamics built on the GENESIS environment |
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