TY - JOUR
T1 - The neocortical microcircuit collaboration portal
T2 - A resource for rat somatosensory cortex
AU - Ramaswamy, Srikanth
AU - Courcol, Jean Denis
AU - Abdellah, Marwan
AU - Adaszewski, Stanislaw R.
AU - Antille, Nicolas
AU - Arsever, Selim
AU - Atenekeng, Guy
AU - Bilgili, Ahmet
AU - Brukau, Yury
AU - Chalimourda, Athanassia
AU - Chindemi, Giuseppe
AU - Delalondre, Fabien
AU - Dumusc, Raphael
AU - Eilemann, Stefan
AU - Gevaert, Michael Emiel
AU - Gleeson, Padraig
AU - Graham, Joe W.
AU - Hernando, Juan B.
AU - Kanari, Lida
AU - Katkov, Yury
AU - Keller, Daniel
AU - King, James G.
AU - Ranjan, Rajnish
AU - Reimann, Michael W.
AU - Rössert, Christian
AU - Shi, Ying
AU - Shillcock, Julian C.
AU - Telefont, Martin
AU - Van Geit, Werner
AU - Villafranca Diaz, Jafet
AU - Walker, Richard
AU - Wang, Yun
AU - Zaninetta, Stefano M.
AU - DeFelipe, Javier
AU - Hill, Sean L.
AU - Muller, Jeffrey
AU - Segev, Idan
AU - Schürmann, Felix
AU - Muller, Eilif B.
AU - Markram, Henry
N1 - Publisher Copyright:
© 2015 Ramaswamy, Courcol, Abdellah, Adaszewski, Antille, Arsever, Atenekeng, Bilgili, Brukau, Chalimourda, Chindemi, Delalondre, Dumusc, Eilemann, Gevaert, Gleeson, Graham, Hernando, Kanari, Katkov, Keller, King, Ranjan, Reimann, Rössert, Shi, Shillcock, Telefont, Van Geit, Villafranca Diaz, Walker, Wang, Zaninetta, DeFelipe, Hill, Muller, Segev, Schürmann, Muller and Markram.
PY - 2015/10/8
Y1 - 2015/10/8
N2 - We have established a multi-constraint, data-driven process to digitally reconstruct, and simulate prototypical neocortical microcircuitry, using sparse experimental data. We applied this process to reconstruct the microcircuitry of the somatosensory cortex in juvenile rat at the cellular and synaptic levels. The resulting reconstruction is broadly consistent with current knowledge about the neocortical microcircuit and provides an array of predictions on its structure and function. To engage the community in exploring, challenging, and refining the reconstruction, we have developed a collaborative, internet-accessible facility—the Neocortical Microcircuit Collaboration portal (NMC portal; https://bbp.epfl.ch/nmc-portal). The NMC portal allows users to access the experimental data used in the reconstruction process, download cellular and synaptic models, and analyze the predicted properties of the microcircuit: six layers, ~31,000 neurons, 55 morphological types, 11 electrical types, 207 morpho-electrical types, 1941 unique synaptic connection types between neurons of specific morphological types, predicted properties for the anatomy and physiology of ~40 million intrinsic synapses. It also provides data supporting comparison of the anatomy and physiology of the reconstructed microcircuit against results in the literature. The portal aims to catalyze consensus on the cellular and synaptic organization of neocortical microcircuitry (ion channel, neuron and synapse types and distributions, connectivity, etc.). Community feedback will contribute to refined versions of the reconstruction to be released periodically. We consider that the reconstructions and the simulations they enable represent a major step in the development of in silico neuroscience.
AB - We have established a multi-constraint, data-driven process to digitally reconstruct, and simulate prototypical neocortical microcircuitry, using sparse experimental data. We applied this process to reconstruct the microcircuitry of the somatosensory cortex in juvenile rat at the cellular and synaptic levels. The resulting reconstruction is broadly consistent with current knowledge about the neocortical microcircuit and provides an array of predictions on its structure and function. To engage the community in exploring, challenging, and refining the reconstruction, we have developed a collaborative, internet-accessible facility—the Neocortical Microcircuit Collaboration portal (NMC portal; https://bbp.epfl.ch/nmc-portal). The NMC portal allows users to access the experimental data used in the reconstruction process, download cellular and synaptic models, and analyze the predicted properties of the microcircuit: six layers, ~31,000 neurons, 55 morphological types, 11 electrical types, 207 morpho-electrical types, 1941 unique synaptic connection types between neurons of specific morphological types, predicted properties for the anatomy and physiology of ~40 million intrinsic synapses. It also provides data supporting comparison of the anatomy and physiology of the reconstructed microcircuit against results in the literature. The portal aims to catalyze consensus on the cellular and synaptic organization of neocortical microcircuitry (ion channel, neuron and synapse types and distributions, connectivity, etc.). Community feedback will contribute to refined versions of the reconstruction to be released periodically. We consider that the reconstructions and the simulations they enable represent a major step in the development of in silico neuroscience.
KW - Experimental data
KW - Ion channels
KW - Microcircuit
KW - Models
KW - Morphologies
KW - Neocortex
KW - Neurons
KW - Synapses
UR - http://www.scopus.com/inward/record.url?scp=84943608097&partnerID=8YFLogxK
U2 - 10.3389/fncir.2015.00044
DO - 10.3389/fncir.2015.00044
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C2 - 26500503
AN - SCOPUS:84943608097
SN - 1662-5110
VL - 9
JO - Frontiers in Neural Circuits
JF - Frontiers in Neural Circuits
IS - OCT
M1 - 44
ER -