From metzner at rob.uni-luebeck.de  Tue Aug  7 15:33:29 2012
From: metzner at rob.uni-luebeck.de (Christoph Metzner)
Date: Tue, 7 Aug 2012 16:33:29 +0200
Subject: [neuroConstruct] Multi-scale Modeling in Computational
	Neuroscience: 2nd Call for Registration
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 *Multi-scale** **Modeling** **in** **Computational** **Neuroscience*



 To be held *September **3** **-** 8*, 2012, University of L?beck, L?beck
Germany



 As the field of computational neuroscience continues to mature, it is clear
that understanding the nervous system from a computational point of view
will require modeling at multiple levels of scale from sub-cellular to
systems and behavior. This hands-on workshop will consider both issues and
techniques involved in modeling nervous systems at single levels of scale
such as intracellular, single neuron and network models, as well as the
opportunities for scientific discovery when models at these scales are
linked. With a strong emphasis on hands on experience, the workshop will
also include lectures focused on multi-scale modeling. The workshop is
designed for advanced graduate students, postdoctoral fellows or faculty
interesting in the practical application and development of multi-scale
modeling techniques as well as software developers interested in development
and integration of computational neuroscience tools.



 Through simulation projects, participants will have the opportunity to
create realistic neural models from sub-cellular to network levels. This
will provide an excellent opportunity for those with previous experience in
neural simulation to learn new techniques and strategies for multi-scale
modeling. Although participants can use the simulator of their choosing,
this workshop will also introduce GENESIS 3 (G-3), a modular
reimplementation of the GENESIS neural simulator that has capabilities
uniquely suited for multi-scale modeling.



 The international faculty includes:



 *Dr.** **James** **M.** **Bower* (University of Texas System) who has been
involved in the development of software tools for multi-scale modeling for
30 years.



 *Dr.** **David** **Beeman** *(University of Colorado) who has supported
multi-scale modeling both as an instructor in numerous international courses
in computational biology as well as in his role as director of the GENESIS
users group.



 *Dr.** **Avrama** **Blackwell* (George Mason University) whose modeling and
experimental expertise involves the investigation of molecular synaptic
mechanisms.



 *Dr.** **Hugo** **Cornelis* (Lead GENESIS developer) with expertise both in
the design and construction of multi-scale simulation systems as well as
modeling at single cell and network levels.



 *Dr.** **Volker** **Steuber* (University of Hertfordshire) with expertise
in biochemical, single cell, network and systems level modeling and
analysis.



 *Mr.** **Armando** **Rodriguez** *(University of Texas San Antonio) an
expert in interface design and interoperability in simulations systems.



 *Application** **deadline** **is** **August** **15th.** *

Applications and inquiries should be sent to: *
gen3 at gradschool.uni-luebeck.de<gen3 at gradschool.uni-luebeck.de?subject=Application%20for%20the%20Multi-scale%20modeling%20Workshop>
*



 Please see the website at:

*https://www.gradschool.uni-luebeck.de/index.php?id=366*

for the latest detailed information.



 The workshop is limited to 20 total participants and therefore, those
interested should register as soon as possible. In addition to the
scientific activities, several social activities have also been planned.



 Given the relatively short time before the workshop, we would greatly
appreciate it if you would pass this announcement on to other colleagues and
students who may find it of interest.





-- 
=========================================================================================================
Institute for Robotics and Cognitive Systems -- University of Luebeck
Graduate School for Computing in Medicine and Life Sciences -- University
of Luebeck
--------------------------------------------------------------------------------------------------------------------------------------------------------------
Dipl. Math. Christoph Metzner         tel:                 +49 451 317 931
12
University of Luebeck                      secretary:       +49 451 500 5201
Institute for Robotics                       fax:                +49 451
500 5202
Ratzeburger Allee 160                    mail:
metzner at rob.uni-luebeck.de
D-23538 Luebeck, Germany            www:
http://www.rob.uni-luebeck.de // http://www.gradschool.uni-luebeck.de/
==========================================================================================================
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From metzner at rob.uni-luebeck.de  Thu Aug 16 15:46:22 2012
From: metzner at rob.uni-luebeck.de (Christoph Metzner)
Date: Thu, 16 Aug 2012 16:46:22 +0200
Subject: [neuroConstruct] EXTENDED DEADLINE: Workshop on Multi-Scale
	Modeling in Computational Neuroscience
Message-ID: <CABSq3skP=aLV8S6Kud_hHrAPu1HMnr08gZqWCAiGkSojBaX0pw@mail.gmail.com>

*Call for Registration/ Extended Deadline*



*Multi-scale* *Modeling* *in* *Computational* *Neuroscience*



*September 3* *-* *8*, 2012, University of L?beck, L?beck Germany



Application Deadline has been extended to August 22nd!



This is the final call for registration for a weeklong workshop in Luebeck
Germany focused on the development and use of multi-scale realistic models
in computational neuroscience.



The workshop will be a hands-on exploration of neuronal models at multiple
levels of scale.  The workshop is particularly appropriate for anyone
already working with a model who would like to connect that model to
representations at other levels of scale.  The workshop is also relevant to
software developers interested in integrating new model analysis and
visualization tools into neuronal simulators.  While participants can use
the simulator of their choosing, the workshop will introduce GENESIS 3
(G-3), a modular reimplementation of the GENESIS neural simulator that has
capabilities uniquely suited for multi-scale modeling.



The international faculty includes:



*Dr.* *James* *M.* *Bower* (University of Texas System) who has been
involved in the development of software tools for multi-scale modeling for
30 years.



*Dr.* *David* *Beeman* (University of Colorado) who has supported
multi-scale modeling both as an instructor in numerous international courses
 in computational biology as well as in his role as director of the GENESIS
users group.



*Dr.* *Avrama* *Blackwell* (George Mason University) whose modeling and
experimental expertise involves the investigation of molecular synaptic
mechanisms.



*Dr.* *Hugo* *Cornelis* (Lead GENESIS developer) with expertise both in the
design and construction of multi-scale simulation systems as well as
modeling at single cell and network levels.



*Dr.* *Volker* *Steuber* (University of Hertfordshire) with expertise in
biochemical, single cell, network and systems level modeling and analysis.



*Mr.* *Armando* *Rodriguez* (University of Texas San Antonio) an expert in
interface design and interoperability in simulations systems.



*Application Deadline has been extended to August 22nd! *

Applications and inquiries should be sent to:
gen3 at gradschool.uni-luebeck.de<gen3 at gradschool.uni-luebeck.de?subject=Application%20for%20the%20Multi-scale%20modeling%20Workshop>



Please see the website at:

http://gradschool.uni-luebeck.de/index.php?id=377

for the latest information.

-- 
=========================================================================================================
Institute for Robotics and Cognitive Systems -- University of Luebeck
Graduate School for Computing in Medicine and Life Sciences -- University
of Luebeck
--------------------------------------------------------------------------------------------------------------------------------------------------------------
Dipl. Math. Christoph Metzner         tel:                 +49 451 317 931
12
University of Luebeck                      secretary:       +49 451 500 5201
Institute for Robotics                       fax:                +49 451
500 5202
Ratzeburger Allee 160                    mail:
metzner at rob.uni-luebeck.de
D-23538 Luebeck, Germany            www:
http://www.rob.uni-luebeck.de // http://www.gradschool.uni-luebeck.de/
==========================================================================================================
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From p.gleeson at ucl.ac.uk  Wed Aug 29 12:04:24 2012
From: p.gleeson at ucl.ac.uk (Padraig Gleeson)
Date: Wed, 29 Aug 2012 12:04:24 +0100
Subject: [neuroConstruct] neuroConstruct v1.6.0
Message-ID: <503DF738.1080708@ucl.ac.uk>

Hi,

The latest version of neuroConstruct, v1.6.0 has been released: 
http://www.neuroconstruct.org/download

This is a minor release (see www.neuroconstruct.org/RELEASE_NOTES for 
more details).

Summary:

* Improved 3D visualisation of cells and networks when segments are 
located more than a few hundred microns away from the origin. Now 3D 
view centres on middle of visible cells. Origin is only included if 
"Show 3D axes" option is selected. Also removed annoying clipping of 
back of 3D view when zooming out.

* Added option to save cells in project in pure NeuroML v1.8.1 format in 
morphologies folder. Now all channels, synapses & cells in a project can 
be stored natively in NeuroML. Also facilitates comparing versions of 
morphology files across commits.

* Improvements to NeuroML 2 cell export in line with the developing 
specification at: http://sourceforge.net/apps/trac/neuroml/browser/NeuroML2.

You can also get the full neuroConstruct source code from our Subversion 
repository. Further info on this is here: 
http://code.google.com/p/openworm/wiki/neuroConstructCElegans

Regards,
Padraig

-----------------------------------------------------
Padraig Gleeson
Room 321, Anatomy Building
Department of Neuroscience, Physiology&  Pharmacology
University College London
Gower Street
London WC1E 6BT
United Kingdom

+44 207 679 3214
p.gleeson at ucl.ac.uk
-----------------------------------------------------