Connectionists: First release of VERTEX cortical tissue LFP simulator

[Marcus Kaiser]

Dear colleagues,

Many of you may be interested the first release of our VERTEX simulator for
biologically realistic models of *primate* cortical tissue.

The Virtual Electrode Recording Tool for EXtracellular potentials (VERTEX)
is a Matlab tool for simulating extracellular potential recordings in
spiking neural network (SNN) models.

As a first application, our model allows us to reproduce temporal and
spatial gamma oscillation features of in vitro MEA recordings of macaque
cortex using more than 100,000 model neurons. However, adapting the code to
other species or tissue types is also possible in the future (see FAQ on
our website). This work provides a starting point for our ongoing work on
the effect of pharmacological and optogenetic neuromodulation in local and
global circuits.

VERTEX 1.0 Release Features

   - VERTEX simulator allows large simulations (> 100 000 neurons) on
   single computers
   - *In silico* neuronal network model of an *in vitro* brain slice
   recording
   - Realistic local field potential recording with “virtual electrodes” at
   any 3D point
   - Direct comparisons between simulated and experimentally observed tissue

Software, a two-minute introductory video, tutorials, manuals, and a FAQ
can be found at: http://www.vertexsimulator.org/

This release is in conjunction with our publication:

Tomsett RJ, Ainsworth M, Thiele A, Sanayei M, Chen X, Gieselmann A,
Whittington MA, Cunningham MO, Kaiser M. Virtual Electrode Recording Tool
for EXtracellular potentials (VERTEX): Comparing multi-electrode recordings
from simulated and biological mammalian cortical tissue. Brain Structure
and Function (in press) http://dx.doi.org/10.1007/s00429–014–0793-x
<http://dx.doi.org/10.1007/s00429-014-0793-x>

Best,
  Marcus

--

Marcus Kaiser, Ph.D.
Associate Professor (Reader) in Neuroinformatics
School of Computing Science
Newcastle University
Claremont Tower
Newcastle upon Tyne NE1 7RU, UK

Lab website:
http://www.dynamic-connectome.org/

Neuroinformatics at Newcastle:
http://neuroinformatics.ncl.ac.uk/


-- 


Best,
  Marcus

--

Marcus Kaiser, Ph.D.
Associate Professor (Reader) in Neuroinformatics
School of Computing Science
Newcastle University
Claremont Tower
Newcastle upon Tyne NE1 7RU, UK

Lab website:
http://www. <http://www.biological-networks.org/>dynamic-connectome.org
<http://www.dynamic-connectome.org/>

Neuroinformatics at Newcastle:
http://neuroinformatics.ncl.ac.uk/
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