July 2017 - Comp-neuro - lists.cnsorg.org

Aspects of Neuroscience - Hackathon: Call for proposals (01.08) - Warsaw, 18-19th November
by Daniel Borek 19 Jul '17

19 Jul '17

On the weekend of 18-19th November, the first edition of Aspects of Neuroscience - Hackathon will take place. During this two-day event dedicated to students and PhD students, we will work in teams on neuroscience-related projects. The aim of the event is to meet new, enthusiastic researchers, to share the knowledge on data mining and brain research, but also to share the data and promote open science. We provide with a list of proposed open-access datasets, but we also encourage participants to share their own data during the event. At the moment, we opened the call for project proposals. The proposals can include various forms of a group activity, e.g., data analysis, app development, a discussion club on a particular topic, developing a software etc. Each proposal should indicate: [1] a title and abstract for the project; [2] a list of 1-5 key papers summarising the subject (which the participants should become familiar with before starting the project); [3] a list of requirements for taking part in the project (education level / English level / programming language required); [4] a maximum number of participants [5] a name of an author of the project, and a name of a senior researcher which will supervise the project during the Hackathon [6] what can the participant gain from the project? [7] an information on whether or not there is a plan for extending this work to a paper in case the results are promising An exemplary proposal is in link https://www.dropbox.com/s/ojui2h0wcz82mgy/EXEMPLARYPROPOSAL.pdf?dl=0 Location: University of Warsaw (Further information will be provided soon) Deadline for project proposals: 01.08.2017 Announcement of projects: 15.08.2017 Deadline for registration of participants: 01.11.2017 Please send your proposals to the conference email: neuroaspects(a)uw.edu.pl Proposals will be evaluated by members of our scientific committee before 15.08.2017 Main organizers: Michał Bola, PhD (Laboratory of Brain Imaging, Nencki Institute of Experimental Biology PAS, Warsaw, Poland) Natalia Bielczyk, MSc (Statistical Imaging Neuroscience Research Group, Donders Institute for Brain, Cognition and Behavior, Nijmegen, The Netherlands) Daniel Borek, MSc (Faculty of Physics, University of Warsaw, Warsaw, Poland) Beata Goźlińska (Faculty of Physics, University of Warsaw, Warsaw, Poland) LIST OF EXAMPLARY OPEN ACCESS DATASETS: [1] calcium imaging datasets: Karl Svoboda https://crcns.org/data-sets/ssc [2] fMRI + DTI: Human Connectome Project http://www. humanconnectome.org/data/ [3] gene expression open-access database: https://www.ncbi.nlm.nih.gov/geo/ + information on gene function: www.uniprot.org [4] EEG, MRI & behavioural data from N=644 children & adolescents: http://biorxiv.org/content/early/2017/06/13/149369 [5] EEG data: http://neurotycho.org/ [6] Research data supporting "Brain connectivity during propofol sedation https://www.repository.cam.ac.uk/handle/1810/252736

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PhD positions on Translational Neurosciences and Neurotechnologies - IIT@UniFe
by Alessandro D'Ausilio 19 Jul '17

19 Jul '17

PHD PROGRAM in TRANSLATIONAL NEUROSCIENCES AND NEUROTECHNOLOGIES The Center for Translational Neurophysiology of Speech and Communication (CTNSC) at the Istituto Italiano di Tecnologia (IIT) is looking for up to 4 highly motivated, full-time PhD students to work in the core research areas of the Center. At the CTNSC we focus our efforts in two integrated directions. On one side we are studying how the brain builds communicative and linguistic representations. On the other side we are designing new brain interfaces, specifically conceived for human use, to record and computationally decode neural signals. The CTNSC is hosted by the Section of Physiology of the University of Ferrara, one of the oldest in Italy (founded in 1391). In terms of its size, facilities, quality and quantity of education and research, the university is a point of excellence within Italy. The PhD student will work in Ferrara, in an international and multidisciplinary team including biomedical engineers, biologists, computer scientists, psychologists and medical doctors. The PhD positions will cover the following core areas of CTNSC: A01 Improving performance and biocompatibility of electrode arrays for brain-computer interfaces A02 Functional investigation of innovative neural interfaces A03 Investigation of sensorimotor functions in animal models (NH primates and rats) A04 Machine learning applications to multimodal brain and speech signals A05 Human neurophysiology of speech and sensorimotor communication A06 Cortical recordings in human patients during awake Neurosurgery A07 Hardware and software development for innovative exploration of brain signals DEADLINE: 1st AUGUST 2017 CTNSC Info: https://www.iit.it/centers/ctnsc-unife PhD page [ITA]: http://www.unife.it/studenti/dottorato/corsi/riforma/neuroscienze How to participate to the selection [ITA/ENG]: http://www.unife.it/studenti/dottorato/modulistica/Guidaconcorso.pdf

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Postdoc + 2 PhD students in limbo, SISSA, Trieste
by Alessandro Treves 18 Jul '17

18 Jul '17

A postdoc is sought to join a HFSP-funded project to study analog cortical computations in linguistic processes. A collaboration with Naama Friedmann (TAU) and Remi Monasson (ENS). Ideal candidates have a flair for (some) language, come from a background we have not thought of and seek to get to places where they have not been, at the crossroads between neuroscience, complex systems, and poetry. Two PhD students from outside Italy are sought to later join as ESRs the EU Training Network M-GATE, on hippocampal memory functions. A network of 7 institutes + 4 companies, coordinated by Francesco Battaglia (Nijmegen). Ideal candidates, who can be of any nationality but must not have spent much time in Italy in the last 3 years, enjoy analytical, mathematical and computational excursions when in search of fundamental network understanding. Deadline August 31st, 2017. Formal applications eventually needed, but please see first obsolete limbo information http://people.sissa.it/~ale/limbo.html and contact ale(a)sissa.it well in advance. -- Alessandro Treves http://people.sissa.it/~ale/limbo.html SISSA - Cognitive Neuroscience, via Bonomea 265, 34136 Trieste, Italy +39-040-3787623 Ambassador (BlaBlaCar) +39-349-2504602

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CNS 2017 workshop:
by s.a.vangils＠utwente.nl 17 Jul '17

17 Jul '17

Please post: Dear all, We cordially invite you to attend our workshop at CNS2017, Thursday July 20: “Recent Developments in Epilepsy Modelling” Epilepsy is a chronic disease of the CNS characterized by the occurrence of seizures. It affects ~1% of the people worldwide, and ⅓ of the affected population does not respond to anticonvulsant drugs. This limited success of anticonvulsant treatment is, in part, due to our limited understanding of the underlying mechanisms that are responsible for the pathological behavior. Translational research can play an important role in the unravelling of the mechanisms that may be responsible. As more and better experimental data become available, it is important to be able to integrate these data with modeling approaches in order to test hypotheses and to improve insight and produce more individualized models. In this workshop a number of active researchers in the field come together to discuss their latest results ranging from computational models on different scales to statistical methods to evaluate the use of biomarkers. Speakers: Victor Jirsa, Fabrice Wendling, Wytse Wadman, Geertjan Huiskamp, Jurgen Hebbink, Bill Lytton, Peter Taylor, Stiliyan Kalitzin, Marc Goodfellow and Stephan van Gils. For details visit: http://wwwhome.math.utwente.nl/%7Egilssa/cns2017/?<http://wwwhome.math.utwente.nl/~gilssa/cns2017/?> With kind regards, Wim van Drongelen en Stephan van Gils Prof. Dr. S.A. (Stephan) van Gils Department of Applied Mathematics University of Twente P.O. Box 217 7500 AE Enschede Chair: Applied Analysis +31-53-4894272 (tel Secretary) +31-53-4893410 (tel Office)

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Review article: Towards building a more complex view of the lateral geniculate nucleus: Recent advances in understanding its role
by Masoud Ghodrati 17 Jul '17

17 Jul '17

Dear vision scientists, We would like to draw your attention to our recent review paper entitled "Towards building a more complex view of the lateral geniculate nucleus: Recent advances in understanding its role <http://www.sciencedirect.com/science/article/pii/S0301008215300757>" published in Progress in Neurobiology, Jun 2017. We hope that this review can link different findings about the LGN function and opens new research avenues in the field. *Recent evidence shows that lateral geniculate nucleus (LGN) has more sophisticated functions than a mere relaying hub. We provide a rather unfiltered and eclectic review of the LGN functions, with some focus on its computational role, as well as its role in higher level cognitive process (specifically higher level vision). **In particular, we argue that the LGN has a variety of complex nonlinear behaviors (perhaps the most interesting nonlinearity involves feedback from cortex). We suggest further development of feedback models of high-level vision considering the LGN function. Because of LGN’s contribution in temporal aspects of object processing, modeling LGN function particularly becomes more important when considering non-stationary stimuli (such as videos). Predictive coding and expectation coding models are in this direction.* Actual link: http://www.sciencedirect.com/science/article/pii/S0301008215300757 Here is authors’ free PDF version of the manuscript: https://goo.gl/KCmUR7 Best -- *_____________________________________________________________* Masoud Ghodrati, Department of Physiology, Monash University, Melbourne, Australia. E-mails: masoud.ghodrati(a)monash.edu Web pages (Personal) : https://sites.google.com/site/masoudghodrati1985/ *_____________________________________________________________*

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Open postdoctoral position in human intracranial electrophysiology: Blanchette Rockefeller Neurosciences Institute, West Virginia University
by Shuo Wang 17 Jul '17

17 Jul '17

*** Sorry for multiple postings*** We invite applicants with strong motivation in investigating the neural mechanisms of face processing and visual attention/saliency to apply for a postdoctoral position at the Blanchette Rockefeller Neurosciences Institute (BRNI), West Virginia University. The applicant will work on intracranial single-unit recordings from human subjects, investigating questions related to face processing and/or visual attention and visual saliency. This will include experimental work with patients (electrophysiology and behavior), data processing and analysis, spike-train analysis, and experimental design. The applicant will have access to state-of-the art equipment, facilities and analytical methods and this research will be in a highly collaborative environment. The applicant will not only collaborate with investigators at the BRNI, but also be part of an established team of investigators at both Cedars-Sinai Medical Center (Dr. Ueli Rutishauser) and the California Institute of Technology (Dr. Ralph Adolphs), with ample opportunity to learn new techniques and methods. Candidates should have a recent PhD in systems, cognitive, or computational neuroscience with a track-record of first-author publications. Strong programming (Matlab or similar), data analysis, statistics and electrophysiology skills are essential. Excellent written and oral English communication skills are required, including the ability to communicate with patients and their families. Individuals with previous human intracranial EEG experience and/or macaque single neuron recordings that wish to expand into human single-unit recordings are encouraged to apply. Interested applicants should send a CV, including a list of publications, a brief description of research interests and analysis skills, and contact information for 2-3 reference letters to Shuo Wang (shuo.wang(a)mail.wvu.edu). Informal inquiries are welcome. Further information about the lab can be found at https://sites.google.com/site/shuowangsocialneuroscience/.

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Methods of Information Theory workshop at CNS*2017
by Joseph Lizier 16 Jul '17

16 Jul '17

Dear all, Please note that the final schedule and speaker abstracts are available for the following workshop at CNS*2017 in Antwerp this week: Workshop on Methods of Information Theory in Computational Neuroscience 19 and 20 July 2017 Methods originally developed in Information Theory have found wide applicability in computational neuroscience. Beyond these original methods there is a need to develop novel tools and approaches that are driven by problems arising in neuroscience. A number of researchers in computational/systems neuroscience and in information/communication theory are investigating problems of information representation and processing. While the goals are often the same, these researchers bring different perspectives and points of view to a common set of neuroscience problems. Often they participate in different fora and their interaction is limited. The goal of the workshop is to bring some of these researchers together to discuss challenges posed by neuroscience and to exchange ideas and present their latest work. The workshop is targeted towards computational and systems neuroscientists with interest in methods of information theory as well as information/communication theorists with interest in neuroscience. Program: Wed 19 July (Room C.101): * 09:00 Raul Vicente, University of Tartu -- "Estimating and applying partial information decomposition to complex systems" * 09:45 Jil Meier, Delft University of Technology -- "The epidemic spreading model and the direction of information flow in brain networks" * 11:00 Karl Friston, University College London -- "Active inference and artificial curiosity" * 11:45 Taro Toyoizumi, RIKEN Brain Science Institute -- "A Local Learning Rule for Independent Component Analysis" * 14:00 Fleur Zeldenrust, Radboud Universiteit -- "Estimating the information extracted by a single spiking neuron from a continuous input time series" * 14:30 Pedro Martinez Mediano, Imperial College London -- "Integrated Information Theory Without the Hot Air" * 15:00 Mehrdad Salmasi, Ludwig-Maximilians-University Munich "Information rate of a synapse during short-term depression" * 16:00 Tatjana Tchumatchenko, Max Planck Institute for Brain Research, Frankfurt -- "Information coding of mean and variance modulating signals in cortical neurons" * 16:45 Renaud Jolivet, University of Geneva -- "Energy-efficient information transfer at synapses" * 17:30 Rodrigo Cofre, University of Geneva and Universidad de Valparaíso -- "Information Entropy Production and Large deviations of Maximum Entropy Processes from Spike Trains" Thu 20 July (Room C.101): * 09:00 Lionel Barnett, University of Sussex -- "Information Transfer in Continuous and Discrete Time" * 09:45 Joseph T. Lizier, The University of Sydney "An estimator for transfer entropy between spike trains" * 11:00 Viola Priesemann, Max Planck Institute for Dynamics and Self-organization, Goettingen -- "Quantifying Information Storage and Modification in Neural Recordings" * 11:45 Demain Battaglia, Aix-Marseille University -- "Discrete information processing states in anesthetized rat recordings" * 14:00 Selin Aviyente, Michigan State University "Directed Information: Application to EEG during cognitive control" * 14:45 Adrià Tauste, Universitat Pompeu Fabra -- "Directed information flow within the thalamo-cortical network" * 16:00 Daniele Marinazzo, University of Ghent -- "Synergy and redundancy in dynamical systems: towards a practical and operative definition" * 16:45 Lubomir Kostal, Academy of Sciences of the Czech Republic -- "Reference frame independence as a constraint on the mutual information decomposition" * 17:30 Robin Ince, University of Glasgow -- "Quantifying representational interactions in neuroimaging and electrophysiological data using information theory" Organisers: Joseph T. Lizier -- chair, The University of Sydney Viola Priesemann, Max Planck Institute for Dynamics and Self-organisation Justin Dauwels, Nanyang Technological University Taro Toyoizumi, RIKEN Brain Science Institute Alexander G. Dimitrov, Washington State University Lubomir Kostal, Academy of Sciences of the Czech Republic Michael Wibral, Goethe University, Frankfurt

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CNS2017 workshop on "Neuronal Oscillations: mechanisms and functionality"
by Frances Skinner 14 Jul '17

14 Jul '17

Please post: Dear all, We invite you to attend our workshop an CNS2017 tthis year. "Neurona*l Oscillations: mechanisms and functionality"* Oscillations at various frequency ranges have been observed in several brain structures (hippocampus, entorhinal cortex, olfactory bulb and others). They are believed to be important for cognitive functions such as learning, memory, navigation and attention. These rhythms have been studied at the single cell level, as the result of the interaction of a neuron’s intrinsic properties, at the network level, as the result of the interaction between the participating neurons and neuronal populations in a given brain region, and at higher levels of organization involving several of these regions. Recent advances in this field have benefited from the interaction between experiment and theory, and models with varying levels of detail. The purpose of this workshop is to bring together modelers, experimentalists and theorists with the goal of sharing and discussing their current results and ideas on the underlying mechanisms that govern the generation of these rhythms at various levels of organization, and their functional implications. An additional goal is to discuss what we mean by an explanation in the context of this workshop. To this end, speakers will be encouraged to address this issue from the perspective of Aristotle's four causes (efficient, material, formal and final causes) <http://plato.stanford.edu/archives/spr2015/entries/aristotle-causality/>. Please see 'What is computational neuroscience? (XVI) What is an explanation?' <http://romainbrette.fr/2013/06/>. Speakers: Day 1: F Skinner, J White, M Bezaire, V Cutsuridis, J Guzman, L Rubchinsky, D Levenstein, F Battaglia, M Bartos, J Mejias Day 2: C. Borgers, C Canavier, M Cunningham, J Lefebvre, A Peyrache, H Rotstein, B Pesaran, A Saudargiene For more details, please visit http://vassiliscutsuridis.com/workshop/CNS2017web.htm Thank you, Frances (on behalf of the organizers) -- Frances Skinner, PhD Krembil Research Institute/UHN and Univ Toronto www.skinnerlab.org

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CNS meeting 2017 workshop on "Recent methods and analyses for neuronal population recordings"
by Valentina Pasquale 14 Jul '17

14 Jul '17

Dear all, I would like to remind you about the WORKSHOP "RECENT METHODS AND ANALYSES FOR LARGE-SCALE NEURONAL POPULATION RECORDINGS" | JULY 19TH-20TH IN ANTWERP @ CNS MEETING 2017 http://www.computational-neuroscience-of-sensory-systems.org/workshop-on-re… Abstract: Understanding how assemblies of neurons encode information requires recording large populations of cells in the brain. In recent years, progress in population calcium imaging and multichannel electrophysiology opened the possibility to record from hundreds or even thousands of neurons simultaneously. While these techniques offer unprecedented chances to monitor large neural circuits, they also push for the design of new algorithms to gather and process information from such high-dimensional datasets. The workshop "Recent methods and analyses for large-scale neuronal population recordings", which will be held on July 19th-20th in Antwerp at the CNS meeting 2017, will gather leading experimentalists and theoreticians to discuss latest computational methods and analyses used to process such large-scale neuronal population recordings, both in vivo and in vitro. Focusing on high-density electrophysiology and calcium imaging, it will review recent advances in neuroinformatics research, including spike sorting techniques and characterization of neural assemblies' spatio-temporal activity. Organizers: Valentina Pasquale (IIT), Michela Chiappalone (IIT), Pierre Yger (Institut de la Vision, France) Speakers: July 19th * Matthias Hennig (University of Edinburgh, Scotland) * Felix Franke (ETH Zurich, Switzerland) * Nick Steinmetz (University College London, UK) * Pierre Yger (Institut de la Vision, France) * Thomas Deneux (UNIC, CNRS, France) * Marius Pachitariu (University College London, UK) * Stephen J. Eglen (University of Cambridge, UK) * Adrien Peyrache (McGill University, Canada) July 20th * George Dimitriadis (Sainsbury Welcome Centre, UK) * Gaute Einevoll (NMBU, Norway) * Yannick Bornat (IMS Bordeaux, France) * Ulisse Ferrari (Institut de la Vision, France) * Sonja Grün (Forschungszentrum Jülich, Germany) * Valentina Pasquale (Istituto Italiano di Tecnologia, Italy) * Arno Onken (Istituto Italiano di Tecnologia, Italy) * Paolo Bonifazi (Ikerbasque, Bilbao, Spain) For further information, please visit: http://www.computational-neuroscience-of-sensory-systems.org/workshop-on-re… Best, Valentina Pasquale valentina.pasquale(a)iit.it<mailto:valentina.pasquale@iit.it> ISTITUTO ITALIANO DI TECNOLOGIA Optical Approaches to Brain Function Lab Via Morego, 30 16163 Genova t: +39 010 71781 475 f: +39 010 71781 230 www.iit.it<http://www.iit.it/>

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Open PhD position computational neuroscienceB
by Claudius Gros 12 Jul '17

12 Jul '17

I would like to brink your attention our PhD-program in Computational Neurosciences / Complex Dynamical Systems at the Institute of Theoretical Physics, Goethe University Frankfurt, Germany Field(s): computational neurosciences, complex systems, theory neural networks, simulated robotics, dynamical systems. Application deadline: August 11, 2017 Contact: Prof. Claudius Gros, cgr[(a)]itp.uni-frankfurt.de We are developing new models and generative principles for the brain using a range of toolsets from dynamical systems theory and computational neurosciences. Examples are new objective functions and generating functionals for the sensori-motor loop, transient state dynamics and self-limiting Hebbian plasticity rules. Several subjects are available for the announced PhD thesis including the generation of transient state dynamics through short-term synaptic plasticity, the study of the stationarity principle for statistical learning and/or the generation of motor primitives through self-organized embodiment within the sensori-motor loop. The work will include analytic investigations and numerical simulations of neural networks and/or of simulated robots, using the toolset of dynamical systems theory. The candidate must have a Diploma/Master in physics, an excellent academic track record and good computational skills. Experience or strong interest in the fields of complex systems, computational neurosciences, dynamical systems theory and/or artificial or biological cognitive systems is expected. The degree of scientific research experience needs to be on the level of a German Diploma/Master The appointment will start summer/fall 2017, for up to three years. Interested applicants must submit a curriculum vitae, a list of publications and copies of the academic record. Name, affiliation and email of one or more potential references are to be given. Claudius Gros http://www.itp.uni-frankfurt.de/~gros General information on the University of Frankfurt and its employment policy. With its around 46000 students and 4600 employees, the Goethe University in Frankfurt is the largest university in the state of Hessen and an internationally renowned, important regional employer. Numerous quality and performance oriented internal reforms have been initiated in the recent years. The reorganized campuses for natural sciences and humanities offer an ideal environment for research and education. Since 2008, the Goethe University is a foundation under public law and enjoys full administrative autonomy. The fixed-term employment of the academic staff is subject to the provisions of the Temporary Science Employment Law (Wissenschaftszeitvertragsgesetz) and the Hessian Higher Education Act (Hessisches Hochschulgesetz). The University advocates gender equality and therefore strongly encourages women to apply. People with disabilities are given preference if equally qualified. ### ### Prof. Dr. Claudius Gros ### http://itp.uni-frankfurt.de/~gros ### ### Complex and Adaptive Dynamical Systems, A Primer ### A graduate-level textbook, Springer (2008/10/13/15) ### ### Mageia, das Buch der Farben ### http://www.buchderfarben.de ###

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