OSB Workshop 2014: Building and sharing models of the cortex#

This meeting was the second main meeting of the Open Source Brain initiative.

Dates: 9am Wednesday 14th - 5pm Friday 16th May, 2014

Location: Hotel Calabona, Alghero, Sardinia

Local organisers: Sergio Solinas), Irene Solinas Organising committee: Padraig Gleeson), Eugenio Piasini, Angus Silver, Boris Marin

Focus of the meeting#

There are an increasing number of cortical cell and network models being developed and made publicly available, from networks of leaky integrate and fire neurons based on cortical connectivity and firing properties, to multicompartmental, conductance based cell models. Many of these are being reused, reimplemented and extended to address new scientific questions by labs around the world.

In this meeting, we looked at the range cortico-thalamic models out there which are of widespread interest and discussed the best ways to get these into public, open source repositories, in standardised formats such as NeuroML and PyNN. We investigated the steps needed to ensure these models are well tested, annotated and ready for use as research tools by the attendees and the wider community.

There were presentations from experimentalists who are producing the data to constrain these models, as well as simulator and application developers who are creating the infrastructure to build, simulate, analyse and share the models.


Giuseppe Chindemi, Blue Brain Project, EPFL, Switzerland

Sharon Crook), Arizona State University, USA

Egidio D’Angelo, University of Pavia, ITALY

Markus Diesmann, Research Center Jülich, Germany

Dirk Feldmeyer, Aachen University, Germany

Alon Korngreen), Bar-Ilan University, Israel

Linda Lanyon, International Neuroinformatics Coordinating Facility, Stockholm, Sweden

Dave Lester), SpiNNaker project, University of Manchester, UK

Robert A. McDougal, Yale University School of Medicine, USA

Michele Migliore, National Research Council, Italy & Yale University School of Medicine, USA

Ole Paulsen, University of Cambridge, UK

Horacio G. Rotstein, New Jersey Institute of Technology, Newark (NJ) USA

Angus Silver), University College London

Werner Van Geit, Blue Brain Project, EPFL, Switzerland

Tim Vogels, University of Oxford, UK

Daniel Wójcik), Nencki Institute, Poland


There was a NeuroML Editorial Board meeting held prior to the main OSB meeting on Tues 13th May.

Minutes of this meeting can be found here.

Wednesday 14th May, 9am - 6pm#

Morning Session

Welcome & background to the Open Source Brain initiative

Angus Silver



Padraig Gleeson

Overview of OSB & relationship to NeuroML


Adrian Quintana

Using Open Source Brain


Relationship to other initiatives

Robert McDougal

ModelView: extracting model structure and presenting it on the web with NEURON


Linda Lanyon

The International Neuroinformatics Coordinating Facility


12:30-13:30 Lunch

Afternoon Session

Detailed modelling of individual cortical neurons

Alon Korngreen

Realistic modelling of cortical pyramidal neurons


Angus Silver

Glutamate-Bound NMDARs Arising from In Vivo-like Network Activity Extend Spatio-temporal Integration in a L5 Cortical Pyramidal Cell Model

Guy Eyal

Dendrites impact the encoding capabilities of the axon


Werner Van Geit

Reconstruction of a neocortical microcircuit: Neurons

Thursday 15th May, 9am - 6pm#

Morning Session

Enabling technologies

Dave Lester

SpiNNaker Software and Open Standards


Matteo Cantarelli

Geppetto: A web based multiscale simulator


Robert Cannon

New features & capabilities under development for NeuroML & LEMS


Network models of the cortex

Tim Vogels

The dance of excitation and inhibition

12:30-13:30 Lunch

Afternoon Session

Markus Diesmann

A full-scale spiking model of the local cortical network


Giuseppe Chindemi

Reconstruction of a neocortical microcircuit: connectivity & synapses

Daniel Wójcik

From generation to publication of simulated data in a large-scale model of thalamo-cortical loop


Chaitanya Chintaluri

Modeling extracellular potentials in a cortical slice preparation


Dirk Feldmeyer

Excitatory and inhibitory neuron morphologies and their implication for synaptic connectivity

Friday 16th May, 9am - 6pm#

Morning Session

OSB Symposium: Oscillation and resonance in CNS network loops

Organiser: Sergio Solinas) This symposium aims to cluster the neuroscientists actively working in the field of neuronal network oscillations within the framework of OSB in order to promote the integration of models and tools in this area. For more information see here: [[Symposium2014]]

Horacio G. Rotstein

Inhibition-based theta resonance in a hippocampal network: a modeling study


Ole Paulsen

Oscillations and resonance in hippocampal neurons.

Michele Migliore

Modeling the effects of electric fields from power lines on hippocampal CA1 pyramidal neurons.

Egidio D’Angelo

Theta-frequency resonance at the cerebellum input stage improves spike timing on the millisecond time-scale

12:30-13:30 Lunch

Afternoon Session

Future plans

Boris Marin

Model testing & validation framework for OSB


Sharon Crook

NeuroML developments: Editorial Board Report & plans for NeuroML Database

Padraig Gleeson

Requirements gathering for OSB: What is needed for truly collaborative model development in computational neuroscience?


If you have any enquiries about this meeting, please don’t hesitate to contact: p.gleeson@ucl.ac.uk.


This meeting was generously supported by:

        Symposium sponsors:          

Illustration courtesy of Matteo Farinella)