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

NEURON course at SFN 2017 meeting

by Ted Carnevale

Space is still available for the NEURON course at this year's meeting of the Society for Neuroscience. If you're a lab director trying to decide whether to add computational modeling to your research program, a grad student or postdoc who is just getting started in modeling, or an established NEURON user who wants to find out what the latest advances are, this one-day course is for you! It starts with a practical introduction that reviews basic concepts and presents a workflow for building and using models of cells and networks, and moves on to topics that include how to speed up simulations, using Python with NEURON, and modeling reactive diffusion with the RxD class. For more information and the registration form, see https://www.neuron.yale.edu/neuron/static/courses/dc2017/dc2017.html --Ted

Sept. 11, 2017

Lecturer in Computer Science (Biological computation - including computational neuroscience)

by Peter Andras

Lecturer in Computer Science Keele University - School of Computing and Mathematics Salary: £33,943 to £39,324 p.a. Grade 7a Hours: Full Time Contract Type: Permanent Closes: 20th September 2017 Job Ref: KU00000544 Keele University is renowned for its exciting approach to higher education, innovative research, beautiful campus, strong community spirit and excellent student experience. With a turnover in excess of £134 million, over 10,000 students and a total staff of approximately 2000, the University provides high quality teaching across a wide range of academic and vocational subjects and promotes world-class research. Further information can be found at <http://www.keele.ac.uk/> http://www.keele.ac.uk. This post represents an exciting opportunity for an ambitious individual to join a team of staff in Keele Universitys Faculty of Natural Sciences. The Faculty is responsible for research and teaching in many areas of computer science, mathematics, and the physical and biological sciences. Applications are welcome from dynamic and enthusiastic individuals committed to high quality teaching and research in any relevant field of Computer Science (e.g. software engineering, security, human-computer interaction, biological computation, machine learning, formal methods, distributed systems but not restricted to these particular fields), and who have interests that complement our existing research strengths while broadening the scope of our teaching expertise. The lectureship post is part of continued growth and expansion of computer science at Keele, which presents many new opportunities for the development of synergies in both teaching and research. Candidates will be expected to develop an active research programme that both complements and extends our existing research profile in Computer Science. Candidates are also expected to develop research collaborations with colleagues at Keele and elsewhere in strategic research areas of the University, such as smart energy, big data or ageing research. Details of the research carried out in Computer Science at Keele can be found at: <http://www.keele.ac.uk/scm/research/compsci/> http://www.keele.ac.uk/scm/research/compsci/ The successful candidate will have a PhD in an appropriate area of Computer Science (or be very close to completion of his/her PhD) and will have a strong commitment to delivering high quality undergraduate teaching, including supervision of undergraduate and postgraduate research projects and the development and delivery of new modules. The post-holder will have the skills, enthusiasm and flexibility for teaching across a wide range of computer science topics and will also contribute to recruitment activities and administrative duties within our Computer Science programmes. Informal enquires can be made to Professor Peter Andras on 01782 733412 or <mailto:p.andras@keele.ac.uk> p.andras(a)keele.ac.uk Keele University is committed to the principles of the Athena SWAN charter, and values equality and diversity across our workforce. We strive to ensure that our workforce is representative of broader society, and therefore, we would actively welcome applications from women for this role. For full post details and online application form please visit: <http://www.keele.ac.uk/vacancies> www.keele.ac.uk/vacancies Or follow the link: people.keele.ac.uk/tlive_webrecruitment/wrd/run/ETREC107GF.open?VACANCY_ID%3 d061051EnUQ <https://people.keele.ac.uk/tlive_webrecruitment/wrd/run/ETREC107GF.open?VAC ANCY_ID%3d061051EnUQ&WVID=0493472Nsk&LANG=USA> &WVID=0493472Nsk&LANG=USA Interviews will be held on: 18th October 2017 --- Professor Peter Andras Professor of Computer Science and Informatics Director of Postgraduate Research, Faculty of Natural Sciences Head of Computing Division, School of Computing and Mathematics Keele University Keele, Staffordshire ST5 5BG UK Tel. +44-1782-733412 Fax. +44-1782-734268 E-mail: <mailto:p.andras@keele.ac.uk> p.andras(a)keele.ac.uk Web: <http://www.scm.keele.ac.uk/staff/p_andras/> www.scm.keele.ac.uk/staff/p_andras/

Sept. 11, 2017

Energy Efficient Neural Code in Individual Neurons and Brain Circuits

by Yu, Yuguo

In collaboration with Frontiers in Neuroscience, section Neuroenergetics, Nutrition and Brain Health, we are organizing a Research Topic titled "Energy Efficient Neural Code in Individual Neurons and Brain Circuits", hosted by Yuguo Yu, Satish Iyengar. As host editor, I would like to encourage you to contribute to this topic. Please find more information about Research Topics below, including the publishing fees that apply. You can also visit the homepage we have created on the Frontiers website, which defines the focus of the topic, and where all published articles will appear. https://urldefense.proofpoint.com/v2/url?u=http-3A__www.frontiersin.org_Neu… Please note the submission deadline for this Research Topic: Oct 28, 2017 With your agreement to take part, I would request you submit an abstract in advance of any manuscript submission you choose to make (deadline identified at the homepage above). As I am using the Frontiers system to manage this topic, please first indicate your decision to participate by clicking on one of the following links. AGREE to Participate https://urldefense.proofpoint.com/v2/url?u=http-3A__www.frontiersin.org_Acc… DECLINE to Participate https://urldefense.proofpoint.com/v2/url?u=http-3A__www.frontiersin.org_Dec… Let me know if you have any questions about my Research Topic. I look forward to hearing from you soon. With best regards, Yuguo Yu Guest Associate Editor, Neuroenergetics, Nutrition and Brain Health www.frontiersin.org<http://www.frontiersin.org/> Frontiers | Peer Reviewed Articles - Open Access Journals<http://www.frontiersin.org/> www.frontiersin.org Open-access publisher of peer-reviewed scientific articles across the entire spectrum of academia. Research network for academics to stay up-to-date with the latest ... ABOUT FRONTIERS RESEARCH TOPICS Founded by scientists in 2007, Frontiers is a community-rooted open-access publisher, driving innovations in peer review, article-level metrics and research networking. The "Frontiers in" journal series hosts 54 journals covering more than 350 academic specialties, with a network of over 200,000 leading researchers worldwide. Frontiers is a registered member of the Open Access Scholarly Publishers Association (https://urldefense.proofpoint.com/v2/url?u=http-3A__www.oaspa.org_member_Fr… ) and was recognized by the ALPSP Award for Innovation in Publishing in 2014. The idea behind a Frontiers Research Topic is to create a comprehensive collection of peer-reviewed articles that address a specific theme of research, as well as a forum for discussion and debate. Contributions can be articles describing original research, methods, hypothesis & theory, opinions, and more. Please see the relevant journal for a full list of accepted article types. Frontiers will also compile an e-book, as soon as all contributing articles are published, that can be used as educational material, be sent to foundations that fund your research, to journalists and press agencies, or to your professional network. E-books are free to read and download. Once published, your articles will be free to access for all readers, indexed in relevant repositories, and as an author in Frontiers, you retain the copyright to your own papers and figures. FRONTIERS PUBLISHING FEES Manuscripts accepted for publication are subject to publishing fees, which vary depending on the article type. Research Topic A type articles receive a discount on publishing fees; please see here for a full fee table, and further relevant FAQs: https://urldefense.proofpoint.com/v2/url?u=http-3A__www.frontiersin.org_abo… .=

Sept. 11, 2017

Software Development Engineer position on Brain Computer Interfaces at Inria, France

by Maureen Clerc

Dear colleagues, Please take note and circulate the following job offer. With apologies for multiple postings. Maureen Clerc ------------------------------------------------------------------------------------------------------------------------------ S oftware Development Engineer position available at Inria Sophia Antipolis, France Summary Inria Sophia Antipolis is seeking to a fill software development engineer position to work on Brain-Computer Interfaces (BCI). The P300-speller BCI application developed at Inria Sophia Antipolis allows severely disabled patients to communicate using brain activity, measured through electroencephalography (EEG). It has shown excellent performance when tested extensively with 20 patients at Nice CHU. However it still requires some improvements to meet patients' expectations. This project, funded by patient associations, aims to bring BCI out of the lab, and deploy it to its end-users. Responsibilities • Analyze existing software. • Reduce dependencies on third-party libraries. • Automatize installation and calibration. • Study portability onto tablet. • Make application adaptable to users' needs. Qualification • Highly motivated to work on a translational project in Brain Computer Interfaces. • Masters degree in computer science or equivalent degree of knowledge. • Significant, demonstrable experience (at least four years) in C/C++ programming. • Experience with working in a Linux environment. • Familiarity with version management (Git, mercurial), compilers and compiling systems (cmake). • Familiarity with EEG and BCI would be appreciated. • Knowledge of graphical interfaces and visualization (OpenGL, Qt, Gtk) would be appreciated. Work environment Inria is a research institute dedicated to numerical sciences. In Sophia Antipolis (20 km from Nice), the Athena team develops methodology for non-invasive imaging of the Central Nervous System. In particular, it hosts a full-fledged Electroencephalography laboratory and investigates Brain-Computer Interfaces, in the context of the Inria Project-Lab bci-lift. Software development is organized within a development team including other software engineers and researchers, following agile development principles. Terms of salary and employment A 15-month renewable contract will be established. Salary will depend on diploma and experience. Applications including a cover letter, curriculum vitae and the names of two referees should be sent by September 30th 2017 to: Dr. Maureen Clerc at maureen.clerc(a)inria.fr More information about Inria and the Athena team can be found at: https://team.inria.fr/athena/

Sept. 8, 2017

Postdoctoral position in Camouflage Pattern Design and Eye-Tracking Experimentation

by Leslie Osborne

Postdoctoral position in Camouflage Pattern Design and Eye-Tracking Experimentation Marine Biological Laboratory, Woods Hole, MA 02543, USA Type: RESEARCH Position: FULL-TIME POST-DOCTORAL SCHOLAR Description: A position for a postdoctoral fellow in computational vision in biological systems is available to study visual camouflage in the Hanlon Lab at MBL, in collaboration with groups at UC Irvine (C. Chubb) and NTHU (C.C. Chiao) and the University of Chicago (S. Palmer and L. Osborne). The goal of the 3-year study is to develop a generative model of successful camouflage patterning and edge design, both at rest and in motion. Camouflage patterns will be inspired by natural animal behaviors, particularly in cephalopods - octopus, cuttlefish, squid – marine fishes, and insects. The postdoc will be involved in the statistical analysis of natural images and artists’ camouflage designs. Our approach is to use gaze tracking during visual search to define metrics of camouflage success and, complementarily, to measure the statistics of image features that draw human gaze. Visual stimuli for search tasks will be taken from natural image and video databases in the Hanlon and Palmer laboratories and artworks created by students at the Rhode Island School of Design. Human gaze tracking data will be collected and analyzed in the Osborne laboratory. The fellow may participate in data collection from live animals and human subjects, but the primary focus will be image and gaze data analysis. Education and Experience: The ideal candidate will have a background in computational analysis or computer vision, and a Ph.D. in computational biology (e.g. neuroscience, cognitive science, animal behavior), physics, computer science, or a related field. Programming experience in MATLAB is highly desirable. Experience in image and video analysis, and programming experience in Python or C, are also desirable. Previous experience in visual psychophysics is not required, but would be helpful. Environment: The Hanlon Laboratory is part of the Eugene Bell Center at the Marine Biology Laboratory. Founded in Woods Hole, Massachusetts in 1888, the MBL is a private, nonprofit institution and an affiliate of the University of Chicago. Utilizing unique and highly tractable marine and aquatic model organisms, high throughput and comparative genetic approaches, novel imaging technologies and the latest advances in data-intensive computational analysis, scientists in the Bell Center, in collaboration with colleagues at the University of Chicago and the Argonne National Laboratory, are providing answers to some of the most fundamental and intriguing questions in biology. The candidate will interact closely with: (i) the team at MBL (the PI and lab personnel); (ii) faculty collaborators at University of Chicago and UC Irvine; (iii) the summer neurobiology and imaging community at MBL; and (iv) art students and faculty at the Rhode Island School of Design. Duration: This position is for 2.5 years. Desired start date is 1 November 2017 or as soon thereafter as feasible. Web link to MBL job listing: https://mbl.simplehire.com/postings/search <https://mbl.simplehire.com/postings/search> Questions: Send inquiries to Roger Hanlon rhanlon(a)mbl.edu <mailto:rhanlon@mbl.edu> Stephanie Palmer sepalmer(a)uchicago.edu <mailto:sepalmer@uchicago.edu> Leslie Osborne osborne(a)uchicago.edu <mailto:osborne@uchicago.edu> Application: The application comprises a cover letter, CV, a 1-2 page description of past research experience, the contact information for 3 references. Follow links at https://mbl.simplehire.com/postings/search <https://mbl.simplehire.com/postings/search> to upload application materials. EEO Statement: MBL supports individuals in reaching their full potential by offering equal employment opportunities and an environment that actively values diversity. MBL complies with all applicable laws concerning hiring and employment practices and is firmly committed to maintaining a workplace free from discrimination by age, ancestry, color, disability, gender, genetic predisposition, national origin, military status, race, religion, or sexual orientation. MBL requires all newly-hired staff to undergo a background check. Background checks are conducted after a conditional offer of employment has been accepted by the applicant. Leslie C. Osborne, Ph.D. Department of Neurobiology Department of Organismal Biology and Anatomy The University of Chicago 947 East 58th St. P415 Chicago IL 60637 osborne(a)uchicago.edu +1 773-834-7989

Sept. 7, 2017

Postdoc Position Available - Human Intracranial Electrophysiology

by Woolnough, Oscar

Postdoctoral Research Positions Available One postdoctoral research position is available at the NeuroImaging and Electrophysiology Lab (www.tandonlab.org) in the Department of Neurosurgery at the University of Texas Medical School in Houston. This position is funded by a recently awarded BRAIN Initiative U01 grant for which Dr. Tandon is the PI. The project uses electrocorticographic (ECoG) recordings on a large cohort (n=80) to evaluate psycho-linguistic models of reading and speech production with the goal being to create network level representation of language. Collaborators on the project with whom the post-doc will work closely are Nathan Crone (Hopkins), Greg Hickok (UCI), Stanislas Dehaene (College de France), Xaq Pitkow (Baylor) and Josh Breier (UT Houston). Project Description: This is a close multi center collaboration that brings together investigators with established track records in intracranial EEG (iEEG) recordings, neuroscience of language and computational neuroscience to better understand the uniquely human behavior of reading and producing language. More details about the U01 grant are online at NIH Reporter. The post-doc will benefit from a close interaction with several experts in the fields of reading, semantics, and speech production. Post-doc Responsibilities: The selected individual is expected to be a highly motivated, team player that has the passion to study cognitive processes using direct recordings in humans. He or she will be responsible for 1) optimizing and refining paradigms for use in the project, 2) data collection in the epilepsy monitoring unit and in the MRI scanner, 3) ECoG data analysis using analysis pipelines existent in the lab and via the development of innovative strategies, and 4) data presentation at conferences, manuscript and grant writing. Requirements: The selected individual must have a Ph.D. in one or more of the following - neuroscience, psychology, cognitive science, mathematics, electrical engineering or computer science. Previous experience in neural time series data analysis or functional imaging studies of reading or speech production is highly desirable. Crucial is the ability to independently code in either or all of the following – MATLAB, R or Python. Given the multiple unpredictable variables and privacy issues around data collection in human patients, the individual must possess high ethical and professionalism standards, be able to adapt to a changing environment, reorganize schedules dynamically, and work with tight deadlines. The individual must possess the ability to work effectively independently, yet collaborate effectively on projects with multiple investigators. A strong publication record and excellent prior academic credentials are highly desirable. If you are interested, you can email us at nitin.tandon(a)uth.tmc.edu or call us at (713) 500-5475.

Sept. 7, 2017

[publication and call for dialog] IEEE CIS Newsletter on Cognitive and Developmental Systems, 14(1), 2017

by Pierre-Yves Oudeyer

Dear colleagues, I am happy to announce the release of the latest issue of the IEEE CIS Newsletter on Cognitive and Developmental Systems (open access). This is a biannual newsletter addressing the sciences of developmental and cognitive processes in natural and artificial organisms, from humans to robots, at the crossroads of cognitive science, developmental psychology, artificial intelligence and neuroscience. It is available at: http://goo.gl/dyrg6s Featuring dialog: === "Exploring Robotic Minds by Predictive Coding Principle" == Dialog initiated by Jun Tani with responses from: Andy Clark, Doug Blank, James Marshall, Lisa Meeden, Stephane Doncieux, Giovanni Pezzulo, Martin Butz, Ezgi Kayhan, Johan Kwisthout and Karl Friston == Topic: The idea that the brain is pro-actively making predictions of the future at multiple levels of hierarchy has become a central topic to explain human intelligence and to design general artificial intelligence systems. This dialog discusses whether hierarchical predictive coding enables a paradigm shift in development robotics and AI. In particular, the dialog reviews the importance of various complementary mechanisms to predictive coding, which happen to be right now very actively researched in artificial intelligence: intrinsic motivation and curiosity, multi-goal learning, developmental stages (also called curriculum learning in machine learning), and the role of self-organization. They also underline several major challenges that need to be addressed for general artificial intelligence in autonomous robots, and that current research in deep learning fails to address: 1) the problem of the poverty of stimulus: autonomous robots, like humans, have access to only little data as they have to collect it themselves with severe time and space constraints; 2) the problem of information sampling: which experiments/observations to make to improve one’s world model. Finally, they also discuss the issue of how these mechanisms arise in infants and participate to their development. Call for new dialog: === "One Developmental Cognitive Architecture to Rule Them All?" == Dialog initiated by Matthias Rolf, Lorijn Zaadnoordijk, Johan Kwisthout == This new dialog asks whether and how it would be useful both epistemologically and in practice to aim towards the development of a “standard integrated cognitive architecture”, akin to “standard models” in physics. In par- ticular, they ask this question in the context of understanding development in infants, and of building developmental architectures, thus addressing the issue of architectures that not only learn, but that are adaptive themselves. Those of you interested in reacting to this dialog initiation are welcome to sub- mit a response by November 30th, 2017. The length of each response must be between 600 and 800 words including references (contact pierre-yves.oudeyer(a)inria.fr) Let me remind you that all issues of the newsletter are all open-access and available at: http://icdl-epirob.org/cdsnl I wish you a stimulating reading! Best regards, Pierre-Yves Oudeyer, Editor of the IEEE CIS Newsletter on Cognitive and Developmental Systems Chair of the IEEE CIS AMD Technical Committee on Cognitive and Developmental Systems Research director, Inria Head of Flowers project-team Inria and Ensta ParisTech, France http://www.pyoudeyer.com Twitter: https://twitter.com/pyoudeyer and Fabien Benureau Assistant Editor Inria Mnemosyne team http://fabien.benureau.com

Sept. 7, 2017

workshop on high performance computing in neuroscience

by Ted Carnevale

This year the workshop on the Neuroscience Gateway Portal (NSG) will be held on Saturday, Nov. 11, from 9 AM to noon in downtown Washington DC near the convention center, as a satellite to the Society for Neuroscience meeting. This workshop will show you how to use this NSF-supported resource in your computationally- intensive modeling and data analysis projects. It will also feature presentations from neuroscientists on how they are using high performance computing (HPC) resources in their own research. The NSG has a simple, convenient browser-based interface for running simulations and data analysis tasks on HPC hardware, and provides free CPU time. It also has a RESTful interface for programmatic access. Currently installed software includes BluePyOpt, Brian, CARLsim, Freesurfer, GENESIS, MATLAB, MOOSE, NEST, NEURON, PyNN, and the Virtual Personalized Multimodal Connectome Pipeline. The registration deadline for this workshop is Friday Oct. 27, but you should register soon because space is limited. See http://www.neuron.yale.edu/neuron/static/courses/nsg2017/nsg2017.html for more information and a link to the registration form. --Ted

Sept. 5, 2017

workshop announcement - Experimental and Theoretical Analysis of Cortical Dynamics - Rovereto Italy

by Stefano Panzeri

The HBP Partnering Project SloW Dyn <https://www.flagera.eu/wp-content/uploads/2016/02/FLAG-ERA_JTC2015_Project_…>, a FLAG-ERA <https://www.flagera.eu>Project, in collaboration with the Istituto Italiano di Tecnologia <http://cncs.iit.it/> and in collaboration with the EITN <https://www.eitn.org/> (European Institute of Theoretical Neuroscience, Human Brain Project) are organizing a one day workshop on: *Experimental and Theoretical Analysis of Cortical Dynamics* Location: Istituto Italiano di Tecnologia, Corso Bettini 31, Rovereto, Italy Date and time: Friday September 22nd, 2017, from 9am to 6pm *Abstract:* Brain function is hypothesized to emerge from the concerted context-dependent dynamics of its networks. This workshop explores theoretical and experimental approaches for the analysis of brain dynamics at multiple spatial and temporal scales. *Confirmed speakers*: Ruth Benavides-Piccione, Cajal Institute, Madrid Maurizio Corbetta, University of Padova Egidio D'Angelo, University of Pavia Alain Destexhe CNRS, Paris Tommaso Fellin IIT, Genoa Mathieu Galtier, Rhythm, Paris Alessandro Gozzi, IIT, Rovereto Maurizio Mattia ISS, Rome Ruben Moreno-Bote, UPF, Barcelona Stefano Panzeri IIT, Rovereto Mavi Sanchez-Vives, IDIBAPS, Barcelona Davide Zoccolan, SISSA, Trieste Hosts: Stefano Panzeri and Tommaso Fellin Attendance is free, but prior registration is needed. For registration and more information, please email slowdynconference(a)gmail.com regards Stefano Panzeri

Sept. 5, 2017

REMINDER: Computational Neuroscience Job at the Krembil Research Institute

by Frances Skinner

Hello all, Just a reminder about the following Faculty position in Computational Neuroscience (see below). *To ensure consideration, please submit your application by September 11th for the latest.* Thank you. --------- https://www.recruitingsite.com/csbsites/uhncareers/JobDescri ption.asp?SiteID=10031&JobNumber=805761 Job Posting #8045761 Position: Computational Neuroscience Research Scientist Site: Krembil Research Institute/Toronto Western Hospital Department: Research Reports to: Director Status: Permanent Full-time The Krembil Research Institute at the University Health Network in Toronto Canada invites applicants to apply for a Scientist position in the area of Computational Neuroscience. The ideal candidate will have a PhD in a relevant field, research expertise and experience in mathematical and computational modeling, and research interests that complement those of the Institute in neurobiology and neurodegeneration. Candidates whose research interests encompasses cellular, micro/macro circuits and/or large scale brain models, and who have collaborative experimental experience are especially encouraged. The successful candidate will have the ability to establish an independent, well-funded program and will be eligible for appointment at the appropriate level within the University of Toronto. The Krembil is one the principal research institutes of the University Health Network of academic teaching hospitals associated with the University of Toronto; the Krembil is also one of the largest research institutes in Canada focusing on human neurological disease from both a basic science and clinical research perspective. The University Health Network (UHN) is Canada's largest academic medical centre, comprising four major teaching hospitals. Qualified applicants must attach their letter of interest, research plan, resume PDF format to the online application and complete some initial screening questions. The search committee will begin to review applications in September with a potential start date in Winter 2018. Posted Date: June 22, 2017 Closing Date: Until filled UHN thanks all applicants, however, only those selected for an interview will be contacted. UHN is a respectful, caring, and inclusive workplace. We are committed to championing accessibility, diversity and equal opportunity. Requests for accommodation can be made at any stage of the recruitment process providing the applicant has met the Bona-fide requirements for the open position. Applicants need to make their requirements known when contacted. -- Frances Skinner, PhD Krembil Research Institute/UHN and Univ Toronto www.skinnerlab.org

Sept. 5, 2017