The Neocortical Microcircuit Collaboration Portal

This portal provides an online public resource of the Blue Brain Project's first release of a digital reconstruction of the microcircuitry of juvenile Rat somatosensory cortex, access to experimental data sets used in the reconstruction, and the resulting models. The following functionality is provided through this portal to support community engagement to use and refine the reconstruction.

  • Neocortical Microcircuit - an interactive browser of the anatomical and physiological properties of the reconstructed microcircuit, which includes facts and figures, detailed analyses, simulation videos, model and data downloads.
  • Literature Consistency - a database of published experimental papers that were used either to constrain parameters of the reconstruction directly, or against which the reconstruction was assessed to be quantitatively or qualitatively consistent. This is intended to be an active list that can be discussed and extended by the community.
  • Videos - a collection of computer generated visualizations of in silico experiments.
  • Images - a collection of images illustrating the various steps in the reconstruction process.
  • Experimental Data - experimental data sets used in the reconstruction process.
  • Tools - tools and documentation for reconstructing, simulating and analyzing the reconstruction.  
  • Downloads - downloadable models from the reconstruction.

A quick guide to navigating the portal

Glossary of terms, and abbreviations

For the associated scientific papers, please refer to the following links:

1. Markram H, Muller E, Ramaswamy S, Reimann MW Abdellah M, Sanchez CA, Ailamaki A, Alonso-Nanclares L, Antille N, Arsever S et al. (2015). Reconstruction and Simulation of Neocortical Microcircuitry. Cell 163:2, 456 - 492. doi: 10.1016/j.cell.2015.09.029

† Co-first author

2. Ramaswamy S, Courcol J-D, Abdellah M, Adaszewski SR, Antille N, Arsever S, Atenekeng G, Bilgili A, Brukau Y, Chalimourda A, Chindemi G, Delalondre F, Dumusc R, Eilemann S, Gevaert ME, Gleeson P, Graham JW, Hernando JB, Kanari L, Katkov Y, Keller D, King JG, Ranjan R, Reimann MW, Rössert C, Shi Y, Shillcock JC, Telefont M, Van Geit W, Villafranca Diaz J, Walker R, Wang Y, Zaninetta SM, DeFelipe J, Hill SL, Muller J, Segev I, Schürmann F, Muller EB and Markram H (2015). The Neocortical Microcircuit Collaboration Portal: A Resource for Rat Somatosensory CortexFront. Neural Circuits 9:44. doi: 10.3389/fncir.2015.00044 

† Denotes equal contribution

3. Reimann MW, King JG, Muller EB, Ramaswamy S and Markram H (2015). An Algorithm to Predict the Connectome of Neural Microcircuits. Front. Comput Neurosci. 9:28. doi: 10.3389/fncom.2015.00120

All material is copyright (c) EPFL/BBP 2005-2015 unless otherwise specified.  Further details are available on the copyright page

Latest comments

This area will contain an active stream of community discussions on the website.

Lynette
Wednesday, December 16, 2015
Lynette
Commented on the Circuit Central page.
this is "Mars Rover" on a rat cortical column.
jean-denis courcol
Thursday, July 30, 2015
jean-denis courcol
Commented on the m-type L23_DBC page.
This is an unbelievable resource for double bouquet cells .
Srikanth Ramaswamy
Wednesday, July 22, 2015
Srikanth Ramaswamy
Commented on a Literature consistency article:
"Microcircuits of excitatory and inhibitory neurons in layer 2/3 of mouse..."
The in silico EPSP amplitudes are consistent with this experimental data set.
Srikanth Ramaswamy
Wednesday, June 10, 2015
Srikanth Ramaswamy
Commented on a Literature consistency article:
"Microcircuits of excitatory and inhibitory neurons in layer 2/3 of mouse..."
The in silico EPSP amplitudes are consistent with this experimental data set.
Srikanth Ramaswamy
Wednesday, June 10, 2015
Srikanth Ramaswamy
Commented on a Literature consistency article:
"Excitatory actions of GABA in the cortex."
The GABAA reversal potential in the digital reconstruction is consistent with this data set.