May 2014 - Comp-neuro - lists.cnsorg.org

Research Assistant Position in the Neuroinformatics lab / Institute of Cognitive Science, University Osnabrück

by Gordon Pipa

The Neuroinformatics Research Group (Prof. Dr. Gordon Pipa) of the Institute of Cognitive Science invites applications for a Research Assistant (Postdoc level), (Salary level E 13 TV-L) to be filled by July 1, 2014 for a period of three years. The position allows for further scientific qualification. Description of Responsibilities: The position involves research on complex neuronal networks and the analysis of data generated by such systems. The research will develop tools and apply these on the estimation of complex and causal interactions between neurons and larger areas of the brain, based on various measurements, such as spiking activity, LFP and ECoG. The successful candidate will be involved in several research projects that range from BSc to PhD projects. The position also involves teaching Cognitive Science courses at B.Sc. and M.Sc. level (4 hours/week). Required Qualifications: Candidates are expected to have an excellent academic degree (PhD and Master/diploma). Applicants should have an excellent knowledge in the field of machine learning, i.e. generalized linear and state space models, kernel methods, reservoir computing and deep learning. Experience or a strong interest in the fields of complex systems, computational neurosciences, dynamical systems theory and the concepts to study these, i.e. bifurcation and stability analysis, and delay coupled differential equations, measurements of complexity, are encouraged. The position may be held full or part-time. As a certified family-friendly institution, Osnabrück University is committed to furthering the compatibility between work/studies and family life. Furthermore, qualified applicants with disabilities will be favored. Applications with the usual documentation, including two letters of recommendation (hardcopies which will not be returned) should be submitted no later than June 4, 2014 to the Director of the Institute of Cognitive Science, University of Osnabrueck, Albrechtstraße 28, 49076 Osnabrueck. An electronic copy of your application should be sent to gpipa(a)uni-osnabrueck.de. Further information can be provided by Prof. Dr. Gordon Pipa, (gpipa(a)uni-osnabrueck.de)

May 15, 2014

3 days left for abstract submission - Bernstein Conference 2014 - Call for Abstracts

by Kerstin Mosch

REMINDER: Call for Abstracts: Bernstein Conference 2014 Deadline of Abstract Submission: May 18, 2014 ************************************************************** Satellite Workshops September 02-03, 2014 Main Conference September 03-05, 2014 ************************************************************** The Bernstein Conference has become the largest annual Computational Neuroscience Conference in Europe and now regularly attracts more than 500 international participants. This year, the Conference is organized by the Bernstein Focus Neurotechnology Goettingen and will take place September 03-05, 2014. In addition, there will be a series of pre-conference satellite workshops on September 02-03, 2014. The Bernstein Conference is a single-track conference, covering all aspects of Computational Neuroscience and Neurotechnology, and sessions for poster presentations are an integral part of the conference. We now invite the submission of abstracts for poster presentations from all relevant areas. Accepted abstracts will be published online and will be citable via Digital Object Identifiers (DOI). Additionally, a small number of abstracts will be selected for contributed talks. DETAILS FOR ABSTRACT SUBMISSION: For abstract submission visit: http://www.bernstein-conference.de/abstracts Deadline: May 18, 2014 CONFERENCE DETAILS: Venue: Satellite Workshops and Main Conference, Central Lecture Hall (ZHG), Platz der Goettinger Sieben 5, 37073 Göttingen, Germany Registration: Conference Registration starts in April, 2014 Early registration deadline: July 7, 2014 For more information on the conference, please visit the website: http://www.bernstein-conference.de PUBLIC PHD STUDENT EVENT: September 02, 2014 PUBLIC LECTURE: September 04, 2014 PROGRAM COMMITTEE: Ilka Diester, Daniel Durstewitz, Thomas Euler, Alexander Gail, Matthias Kaschube, Jason Kerr, Roland Schaette, Fred Wolf, Florentin Wörgötter, ORGANIZING COMMITTEE: Florentin Wörgötter, Kerstin Mosch, Yvonne Reimann Bernstein Coordination Site (BCOS): Andrea Huber Broesamle, Mareike Kardinal, Kerstin Schwarzwaelder We look forward to seeing you in Goettingen in September! -- Dr. Kerstin Mosch Bernstein Center for Computational Neuroscience (BCCN) Goettingen Bernstein Focus Neurotechnology (BFNT) Goettingen Max Planck Institute for Dynamics and Self-Organization Am Fassberg 17 D-37077 Goettingen Germany T: +49 (0) 551 5176 - 425 E: kerstin(a)nld.ds.mpg.de I: www.bccn-goettingen.de I: www.bfnt-goettingen.de

May 15, 2014

Deep Learning Overview - Draft

by Juergen Schmidhuber

Dear computational neuroscientists, here the preliminary draft of an invited Deep Learning overview: http://www.idsia.ch/~juergen/DeepLearning15May2014.pdf It mostly consists of references (about 800 entries so far). Important citations are still missing though. As a machine learning researcher, I am obsessed with credit assignment. In case you know of references to add or correct, please send them with brief explanations to juergen(a)idsia.ch (NOT TO THE ENTIRE LIST!), preferably together with URL links to PDFs for verification. Please also do not hesitate to send me additional corrections / improvements / suggestions / Deep Learning success stories with feedforward and recurrent neural networks. I'll post a revised version later. Thanks a lot! Abstract. In recent years, deep artificial neural networks (including recurrent ones) have won numerous contests in pattern recognition and machine learning. This historical survey compactly summarises relevant work, much of it from the previous millennium. Shallow and deep learners are distinguished by the depth of their credit assignment paths, which are chains of possibly learnable, causal links between actions and effects. I review deep supervised learning (also recapitulating the history of backpropagation), unsupervised learning, reinforcement learning & evolutionary computation, and indirect search for short programs encoding deep and large networks. Juergen Schmidhuber http://www.idsia.ch/~juergen/ http://www.idsia.ch/~juergen/whatsnew.html

May 15, 2014

OpenWorm Kickstarter Campaign

by Shreejoy Tripathy

Dear Colleagues, I'm writing to let you know about the OpenWorm Kickstarter Campaign (link: https://www.kickstarter.com/projects/openworm/openworm-a-digital-organism-i…) As you may know, the goal of the OpenWorm project is to digitally simulate a C. Elegans organism. By design, the project is organized in a geographically distributed fashion and all of the work is being done in the open (on GitHub and Youtube) using entirely open source code and public data. Though I’m not a worm researcher, I’m supporting OpenWorm’s Kickstarter because I strongly believe in their overall mission. As a computational neuroscientist, I see the project as a necessary first step in the simulation of more complex organisms, including mice and ultimately humans. Moreover, I see my Kickstarter contribution as a future investment in the open source tools and methodologies that OpenWorm develops that I hope to eventually use in my own research. More philosophically, I think that lately the field of neuroscience has suffered from some amount of “overhype”, especially given the initially promised outcomes of recent large-scale brain initiatives (e.g., recording from all neurons in a mammalian brain, simulating an entire human brain). While these projects have been hugely successful in catalyzing widespread public support of basic neuroscience research, many neuroscientists see these promises as perhaps a bridge too far given the current research state. Though OpenWorm's goals are itself highly ambitious, the relative simplicity of the worm (named neurons, stereotyped connectomes and musculature, the ability to image neuronal activity in vivo) lends itself well to this attempt. By conducting the project in the open and basing success on quantifiable goals (i.e., how similar are the simulated worm's movements and neural activity to experimental measurements), the project will serve as a roadmap for future endeavours in multi-scale data integration and organismal simulation. Lastly, the geographically distributed and highly interdisciplinary nature of the project makes it challenging to receive funding through traditional NIH-style mechanisms. For this reason, I'm asking you to join me in supporting the project's Kickstarter campaign. More information: OpenWorm Website: http://www.openworm.org Kickstarter campaign link: https://www.kickstarter.com/projects/openworm/openworm-a-digital-organism-i… Project overview by OpenWorm member and neuroscientist Jim Hokanson: http://jimandscience.blogspot.ca/2014/05/modeling-worm-thoughts-on-openworm… OpenWorm QandA on Reddit: http://www.reddit.com/r/science/comments/246dlw/science_ama_series_im_steph… Sincerely, Shreejoy Tripathy Post-doc and Developer of neuroelectro.org University of British Columbia Centre for High-Throughput Biology

May 12, 2014

CAN satellite workshop

by Gunnar Blohm

*Invitation to the CAN 2014 satellite workshop on "Neural circuits of health and disease: from computation to experiment" * ** We would like to invite you to join us at the CAN 2014 satellite workshop on "Neural circuits of health and disease: from computation to experiment" to be held on *Monday, May 26 between 5pm and 10pm *at the Montreal Hilton Bonaventure. This workshop is organized by the Canadian Association for Neuroinformatics and Computational Neuroscience (CNCN) and jointly sponsored by CIHR and NeuroDevNet. The *goals *of this workshop are to (1) showcase the significance of CNCN-experimental collaborations, (2) enable new breakthroughs on major health questions through break-out sessions matching CNCN expertise with experimentalists, and (3) prepare a joint vision on how CNCN will optimally benefit health research in Canada. We hope to build new collaborations, exchange ideas and demonstrate the usefulness of CNCN. In addition, we aim at providing specific suggestions to funding agencies on how CNCN could further boost Canadian health research. We are also very honored to have *Dr. Eve Marder* (Brandeis University; former SfN president) as a keynote lecturer. Please see below for a detailed program. If you are interested in participating, please email Dr. Gunnar Blohm (gunnar.blohm(a)queensu.ca <mailto:gunnar.blohm@queensu.ca>) with a short statement of interest and benefit of participation to you. Although this workshop is mainly intended for PIs, we also encourage senior graduate students and postdocs to apply. Participation is by invitation only. The CNCN steering committee will select 60 participants (10 students/postdocs) out of all applications. Thanks to CIHR and NeuroDevNet, workshop participation is free and includes dinner. We hope to see you at the workshop! Sincerely Gunnar Blohm & Paul Pavlidis (co-organizers, co-directors of CNCN) _Preliminary Program_: 5pm -- 5:15pm -- Welcome by Paul Pavlidis & Gunnar Blohm Showcases of CNCN-experimental collaborations 5-15pm -- 5:45pm: Neurodevelopmental disorders (TBD) 5:45pm -- 6:15pm: Stroke (TBD) 6:15pm -- 6:45pm: Changes in the dynamics of network oscillations in hippocampus as markers of neurodegeneration in Alzheimer disease mice models (Frances Skinner, U Toronto; Sylvain Williams, McGill) 6:45pm -- 7:15pm: Genomics and neuropsychiatric disorders (Gustavo Turecki, McGill; Paul Pavlidis, UBC) 7:15pm -- 8:30pm: 6 chaired round table discussions & dinner 8:30pm -- 9:30pm: keynote lecture (Dr. Eve Marder) 9:30pm -- open end: open discussion on vision of CNCN -- ------------------------------------------------------- Dr. Gunnar BLOHM Assistant Professor in Computational Neuroscience Centre for Neuroscience Studies, Departments of Biomedical and Molecular Sciences, Mathematics & Statistics, and Psychology, School of Computing, and Canadian Action and Perception Network (CAPnet) Queen's University 18, Stuart Street Kingston, Ontario, Canada, K7L 3N6 Tel: (613) 533-3385 Fax: (613) 533-6840 Email: Gunnar.Blohm(a)QueensU.ca Web: http://www.compneurosci.com/

May 12, 2014

Postdoctoral Position: Psychiatry and Theoretical Neuroscience

by Andre Longtin

A two-year postdoctoral position is immediately available at the interface of psychiatry and theoretical neuroscience at the University of Ottawa's Center for Neural Dynamics. This is a joint position between the Mind, Brain Imaging and Neuroethics group of Prof. Georg Northoff at the Institute of Mental Health Research and the Neurophysics and Nonlinear Dynamics group of Prof. André Longtin in the Physics Department. The candidate should be open to learning and, most optimally, already experienced in the analysis of the temporal and spatial activity structure in large scale neural data sets, using various measures inspired from linear (e.g. cross-spectral and phase coherence), nonlinear and stochastic dynamics. Ideally the candidate would also be experienced in modelling and simulation. The focus is on the perception of time, in particular on how it is altered by excitation-inhibition imbalances. Candidates should have a PhD degree in physics, engineering, mathematics, computer science, neuroscience, computational neuroscience or cognitive neuroscience, an excellent related research experience in neuroscience, as well as strong computational, written and oral communication skills. Applications consisting of a CV and a brief statement of research interest should be sent to alongtin(a)uottawa.ca . Applications will be considered until the position is filled.

May 9, 2014

NEURON course discounts continue!

by Ted Carnevale

The early registration discounts for this year's NEURON summer courses were originally supposed to end today, but we have been able to arrange to continue the discounts for as long as seats remain open, or until the Friday May 30 registration deadline. NEURON Fundamentals June 21-24 This addresses all aspects of using NEURON to model individual neurons, and also introduces parallel simulation and the fundamentals of modeling networks. Includes a healthy serving of Python. Parallel Simulation with NEURON June 25-26 This is for users who are already familiar with NEURON and need to create models that will run on parallel hardware. Special attention will be paid to critical topics such as powerful strategies and idioms for implementing and managing models, measuring and improving performance, and debugging. $1050 for the Fundamentals course $650 for the Parallel Simulation course $1600 for both These fees cover handout materials plus food and housing on the campus of UC San Diego. For more information and the on-line registration form, see http://www.neuron.yale.edu/neuron/courses --Ted

May 9, 2014

Postdoc position in molecular modeling of signaling pathways

by Erik De Schutter

A postdoctoral position is available in the Computational Neuroscience Unit of Dr. Erik De Schutter at the Okinawa Institute of Science and Technology, Japan (http://www.irp.oist.jp/cns/) to model molecular aspects of cerebellar Purkinje cell function. We study the signaling pathways involved in cerebellar long-term depression at the parallel fiber to Purkinje cell synapse. You will be able to use a detailed stochastic model using the STEPS simulator (http://steps.sourceforge.net/) that replicates calcium uncaging experiments in detail (Antunes and De Schutter 2012). This well mixed model with about 400 different reactions has generated new insights in the sources of stochasticity in synaptic plasticity induction. Now we want to expand this work in two directions: to include diffusion, distributing reactions between the spine and dendrite, and to include induction of parallel fiber long-term potentiation. Candidates should have experience with modeling molecular reactions. Knowledge of signaling pathways involved in synaptic plasticity preferred. QUALIFICATIONS: Good English language skills are essential. There will be ample opportunity to interact with modelers and software developers in the lab who are working on several Purkinje cell and cerebellar related projects and with other scientists at the English language multi-disciplinary environment of OIST. Write me if interested. Include CV and names of two references.

May 9, 2014

Open Position: Scientific Computing Specialist at Columbia University Zuckerman Institute

by Rajendra Bose

Announcing an open position for “Scientific Computing Specialist” in the Research Computing group at the new Mortimer B. Zuckerman Mind Brain Behavior Institute at Columbia. Please pass along the link below to anybody who may be interested. http://www.columbia.edu/~rb2568/zmbbi_scs.pdf Thank you-- Raj Rajendra Bose, Ph.D. 2014 Secretary, Coalition for Academic Scientific Computation http://casc.org Director, Research Computing Mortimer B. Zuckerman Mind Brain Behavior Institute Columbia University Tel: 212-851-2918 http://zuckermaninstitute.columbia.edu

May 8, 2014

European Summer School on Eye Movements (ESSEM) 2014

by Ulrich Ettinger

Dear list members, * Apologies for multiple postings * This is the first call for the European Summer School on Eye Movements (ESSEM) 2014, funded by the Boehringer-Ingelheim-Stiftung and organised by Christoph Klein (Freiburg/Bangor) and Ulrich Ettinger (Bonn). ESSEM 2014 will be held at the Department of Child and Adolescent Psychiatry of the University of Freiburg, Germany, from 8th to 13th September 2014. ESSEM brings together internationally renowned researchers to teach students in the theories, neural bases, experimental designs and statistical analysis of eye movements studies in basic science as well as applied settings. Please see below for a preliminary list of speakers. We are pleased to now invite applications from students and researchers at the PhD/MD or early post-doctoral level. Financial support is available for participants’ travel and accommodation expenses. The course fee is €250 and includes catering (lunch, coffee) throughout the summer school. Participants are expected to present a poster of a study they have carried out (not necessarily involving oculographic methods) on the first day of ESSEM. To apply, please send a cover letter with brief personal statement on why you wish to attend ESSEM, your current CV and the abstract for your poster presentation to essem(a)uni-bonn.de. The deadline for applications is 31st May 2014. For further information please visit http://www.psychologie.uni-bonn.de/units/cognitive-psychology?set_language=… or contact essem(a)uni-bonn.de With best wishes, Christoph Klein & Ulrich Ettinger Preliminary List of Speakers, ESSEM 2014: Giuseppe Boccignone (Italy) Ulrich Ettinger (Germany) Tom Foulsham (UK) Mark Greenlee (Germany) Sam Hutton (UK) Yukko Hyönä (Finland) Alan Kingston (Canada) Christoph Klein (Germany/UK) Bruno Laeng (Norway) Rebekka Lencer (Germany) Susana Martinez-Conde (USA) René Müri (Switzerland) Nadine Petrovsky (Germany) Pierre Pouget (France) Nikolaos Smyrnis (Greece) Werner Sommer (Germany)

May 8, 2014