- Comp-neuro - lists.cnsorg.org

7th International Summer School of Neuroengineering "Massimo Grattarola": reminder!

by Paolo Massobrio

Dear colleagues, Just a simple reminder! Still 1 month left for the application deadline of the 7th International Summer School of Neuroengineering "Massimo Grattarola" (Neurotechnologies and Computational Methods to Interact with the Brain) that will be held in Genova (Italy) 18th-22nd June 2018. On our website (www.neuroengineering.eu <http://www.neuroengineering.eu> ) you can find the final program of the lectures. The keynote speech will be given by Prof. Miguel Nicolelis (Duke University). The school aims to introduce computational and technological methods to PhD students and post-docs of different backgrounds (life sciences, physics, engineering) to interact with the brain. Dates: 18th-22nd June 2018 Location: Genova (Italy) Registration: Participation is limited to 60 attendees (students, post-docs, .). Registration close 20th May. Website: www.neuroengineering.eu <http://www.neuroengineering.eu> Poster session: Students attending the school will have the opportunity to present their results in a two-days poster session. Practical session: Use of a high-density EEG set-up and a multi-electrode array for in vitro applications. Confirmed speakers: Miguel Nicolelis (Duke University), Shimon Marom (Technion Israel Institute of Technology), Matias Palva (Univ. Helsinki), Andreas Hierlemann (ETH), Tim Harris (Janelia Research Campus), Lucilla de Arcangelis (Univ. of Campania), Annalisa Bonfiglio (Univ. Cagliari), Sylvie Renaud (Bordeaux INP), Valentina Pasquale (Italian Institute of Technology), Michele Giugliano (Univ. Antwerp), Michele Migliore (CNR), Silvia Casarotto (Univ. Milano), Michela Chiappalone (Italian Institute of Technology), Stanisa Raspopovic (ETH), Ioannis Isaias (Uni. Wurzburg), Mario Rosanova (Uni. Milano) Best regards Paolo Massobrio _________________________________________________ Paolo Massobrio, PhD Assistant Professor of Bioengineering Neuroengineering and Bio-Nano Technology - NBT - Lab Department of Informatics, Bioengineering, Robotics and System Engineering - DIBRIS University of Genova Via Opera Pia 13, 16145, GENOVA, ITALY Phone: +39-010-3532761 Fax: +39-010-3532764 URL: <http://www.dibris.unige.it/> www.dibris.unige.it; <http://www.nbt.unige.it> www.nbt.unige.it E-mail: <mailto:paolo.massobrio@unige.it> paolo.massobrio(a)unige.it

April 20, 2018

Workshop on topology and neuroscience - First announcement

by Nicolas Ninin

Dear colleagues, We are pleased to announce the first workshop on topology and neuroscience, which will be held from Wednesday, November 28, to Friday, November 30, 2018 at the EPFL campus in Lausanne, Switzerland. This workshop aims at bringing together people working at the intersection of topology and neuroscience and welcomes anyone who has an interest in these subjects. There will be two lecture series by: Carina Curto, Pennsylvania State University Olaf Sporns, Indiana University There will be contributed talks given by: Paul Expert, Imperial College London Eyal Gal, The Hebrew University of Jerusalem Chad Giusti, University of Delaware Jürgen Jost, Max-Planck-Institut für Mathematik in den Naturwissenschaften in Leipzig Tom Leinster, University of Edinburgh Ran Levi, University of Aberdeen Sofia Olhede, University College London Jose Perea, Michigan State University Erik Rybakken, Norwegian University of Science and Technology (TBC) Bernadette Stolz, University of Oxford Katharine Turner, Australian National University Hubert Wagner, Institute of Science and Technology Austria Additionally, there will be a poster session during the workshop. Registration is now open at the conference website: <https://neurotop2018.org/> https://neurotop2018.org/ and will close September 1, 2018 or when we reach capacity. We have limited funding for students to cover local expenses. Applications for such funding is now open at the conference website and will close on July 1, 2018. All additional relevant information regarding the conference will continuously be updated on the conference website. In particular, travel information on how to get to EPFL as well as suggested accommodation options are already detailed there. You can contact the organizers at neurotop2018(a)neurotop2018.org. With best regards, Nicolas Nininon behalf of the organzing committee Stefania Ebli Daniela Egas Santander Nicolas Ninin Gard Spreemann

April 19, 2018

Call for Papers MICCAI International Workshop on Machine Learning for Clinical Neuroimaging (MLCN): Spatially Structured Data Analysis

by Marquand, A.F. (Andre)

Call for Papers MICCAI International Workshop on Machine Learning for Clinical Neuroimaging (MLCN): Spatially Structured Data Analysis (September 20, 2018, Granada, Spain) Recent advances in neuroimaging and statistical machine learning provide an exceptional opportunity for investigators and physicians to discover complex relationships between brain, behaviors, and mental and neurological disorders. MLCN 2018 workshop (https://mlcn2018.com/) as a satellite event of MICCAI 2018 (http://www.miccai2018.org/en/) aims to bring together researchers in both theory and application from various fields in domains of spatial statistics, pattern recognition in neuroimaging, and predictive clinical neuroscience. Topics of interests include but are not limited to: * Applications of spatio-temporal modeling in predictive clinical neuroscience * Spatial regularization in decoding clinical neuroimaging data * Spatial statistics in neuroimaging * Learning with structured inputs and outputs in clinical neuroscience * Multi-task learning in analyzing structured neuroimaging data * Deep learning in analyzing structured neuroimaging data * Model stability and interpretability in clinical neuroscience Submission Process: The workshop seeks high quality, original, and unpublished work on algorithms, theory, and applications of machine learning in clinical neuroimaging and spatially structured data analysis. Papers should be submitted electronically in Springer Lecture Notes in Computer Science (LCNS) style (https://www.springer.com/gp/computer-science/lncs/conference-proceedings-gu…) of up to 8-pages papers using the CMT system at https://cmt3.research.microsoft.com/MLCN2018<https://mail.ru.nl/owa/redir.aspx?C=cF_JmZM8kIynrj31nweTMkQwN3oMG8T7g2yKH7j…>. This workshop uses a double-blind review process in the evaluation phase, thus authors must ensure anonymous submissions. Accepted papers will be published in a joint proceeding with the MICCAI conference. Important Dates: * Paper submission deadline: June 11, 2018 (23:59 PST) * Notification of Acceptance: July 16, 2018 * Camera-ready Submission: July 23, 2018 * Workshop Date: September 20, 2018

April 19, 2018

CALL FOR PAPERS

by Steve Mehrkanoon

*CALL FOR PAPERS* *Special issue* Neural Systems Engineering and Mathematical Modelling of Brain Dynamics using ECoG/EEG/MEG Oscillations and Machine Learning Methods *Journal* IEEE Transactions on Neural Systems and Rehabilitation Engineering *Publication fee: **Free* Paper Submission Deadline: *31/05/2018* Submission portal: *https://mc.manuscriptcentral.com/tnsre-embs* <https://mc.manuscriptcentral.com/tnsre-embs> *PhD students, postdocs, early and mid career research fellows **are **welcome to **contribute to this spe**cial iss**ue**. * *Contributions will receive prompt and thorough peer review and will be published online ahead of print after acceptance.* In humans, interactions between neuronal circuits, systems and signals among micro-, meso- and macro-scales of brain dynamics underpin the functional organisation of the brain that supports our daily life activity. How efficiently neuronal circuits such as cortico-cortical, cortico-thalamic and thalamo-cortical networks interact among these multiple spatial scales remains to be fully elucidated. Mathematical, computational and experimental neuroscientists apply a variety of methods, techniques and algorithms, both in animals and humans, ranging from single cell recordings to whole brain imaging, in order to identify the core mechanisms that govern the interactions among these scales. Although our knowledge of neural mechanisms, circuits and networks underlying brain dynamics and functions constantly grows, the integration of this knowledge to provide a conceptual framework of emergent behaviour and pattern formation occurring on different levels of spatial organisation remains challenging. Authors are invited to submit original or review articles addressing mechanisms of emergent brain dynamics inferred from the analysis of ECoG/EEG/MEG, on all levels of complexity. Specifically, articles integrating (i) computational neuroscience, and (ii) mathematical models of biologically realistic neuronal networks and machine learning methods are welcome. In this special issue, Guest Editor Dr Steve Mehrkanoon welcomes papers that address many of the challenges of mathematical and computational models of the brain networks and dynamics given the measurement data ECoG/EEG/MEG. The scope of this special issue is interdisciplinary. The list of possible topics includes, but is not limited to: - New developments in computational and mathematical models of mean field theory integrated with ECoG/EEG/MEG modalities - Multi-modal and combinatorial fusion of ECoG/EEG/MEG data and brain connectivity machine learning - Development of data-driven machine learning techniques to identify the mechanisms of emergent spatia-temporal dynamics within the framework of network topology - Development of computational and mathematical models for bridging the scales of brain dynamics - Cortical network modelling and formal conceptual models of cortical oscillations - Application of deep learning and machine learning algorithms in functional, structural and effective network analysis and predictive models of brain dynamics. - New cutting-edge numerical analysis and techniques to simulate/implement - Adaptive mathematical and computational models of network dynamics (e.g., brain development and aging studies) - Statistical methods for assessing individual and population brain connectivity data *Guest Editors* 1. *Dr Steve Mehrkanoon* The University of Queensland Centre for Clinical Research, Faculty of Medicine, School of Information Technology and Electrical Engineering, The University of Queensland, Brisbane, Australia Contact: s.mehrkanoon(a)uq.edu.au 1. *Professor David Liley* Centre for Human Psychopharmacology, School of Health Sciences, Swinburne University of Technology, Melbourne, Australia Contact: dliley(a)swin.edu.au 1. *Dr Siamak Mehrkanoon* Department of Electrical Engineering (ESAT), University of Leuven, KU Leuven, Belgium Contact: Siamak.Mehrkanoon(a)esat.kuleuven.be *IMPORTANT DATES* Paper Submission Deadline: 31/05/2018 Notification Of Acceptance: 31/08/2018 Special issue information https://tnsre.embs.org/2018/04/13/call-for-papers-special-issue-on-neural-s… - - - - *Dr Steve Mehrkanoon* Senior Mathematical Neuroscientist, Advance Queensland Research Fellow, Perinatal Research Centre, Faculty of Medicine, Home: http://researchers.uq.edu.au/researcher/14135 Level 4, UQ Centre for Clinical Research, Building 71/918 <https://www.google.com.au/maps/place/UQCCR/@-27.448514,153.028703,15z/data=…> Royal Brisbane and Women’s Hospital, Qld 4029 T: +61 7 33466012 CIRCOS Code 0025B The Faculty of Medicine is embracing the Green Office philosophy. Please consider the environment before printing this email. This email (including any attached files) is intended solely for the addressee and may contain confidential information of The University of Queensland. If you are not the addressee, you are notified that any transmission, distribution, printing or photocopying of this email is prohibited. If you have received this email in error, please delete and notify me. Unless explicitly stated, the opinions expressed in this email do not represent the official position of The University of Queensland.

April 19, 2018

Stanford University Job Opportunities: Postdoctoral Fellowship

by Christina Atkinson

Stanford University’s Department of Psychiatry & Behavioral Sciences is seeking to hire a full time post-doctoral fellow for their Cognitive & Systems Neuroscience Laboratory. This lab is headed by Dr. Vinod Menon who has broad multidisciplinary expertise that spans several scientific disciplines and has published extensively on various aspects of human cognition and brain function. Explore our lab website for more information: http://med.stanford.edu/scsnl.html. POSTDOCTORAL FELLOWSHIP IN COMPUTATIONAL MODELING OF BRAIN NETWORKS Currently Available: The Stanford Cognitive and Systems Neuroscience Laboratory invites applications for a postdoctoralfellowship in computational modeling of human brain imaging data using deep neural networks. The successful candidate will be involved in a multidisciplinary project that seeks to develop novel computational frameworks for robust identification of neurobiological signatures of psychiatric and neurological disorders combining deep learning and convolution networks and dynamic brain circuit analyses with task and resting-state fMRI. Clinical disorders currently under investigation include autism, ADHD, anxiety and mood disorders, learning disabilities, schizophrenia, and Parkinson’s disease. We seek talented and highly-motivated individuals with a strong background in at least one of these areas: deep learning algorithms and optimization (theory and practical implementations); computational modeling, statistical inference, and machine learning, especially as applied to fMRI and MRI data. The candidate will have access to multiple large datasets and state-of-the-art computational resources, including HPCs and GPGPUs. Please email a CV, statement of research interests and relevant background, and have three letters of reference sent to Drs. Vinod Menon and Aarthi Padmanabhan at scsnl.stanford+postdoc(a)gmail.com<mailto:scsnl.stanford@gmail.com>

April 19, 2018

Scientist position in Modeling at the Allen Institute for Brain Science

by Anton Arkhipov

An exciting opportunity at the Allen Institute for Brain Science - a new Scientist position in Modeling is now open. Please apply here: https://alleninstitute.hrmdirect.com/employment/job-opening.php?req=746277&… We are seeking a Scientist to work on bio-realistic modeling of the mouse visual cortex, in close collaboration with in-house experimentalists studying the structure (cell types and connectivity) and in vivo function (patterns of neural activity and computations) of cortical circuits involved in behavior. Our team constructs models of neurons based on in vitro studies (see, e.g., https://www.nature.com/articles/s41467-017-02718-3 and http://celltypes.brain-map.org) and employs them as building blocks for large-scale data-driven models of cortical circuitry (see, e.g., https://www.biorxiv.org/content/early/2018/03/31/292839) The developed models are used to ask questions about activity and mechanisms observed in unprecedented high-throughput in vivo recordings (http://observatory.brain-map.org/visualcoding) We also build and disseminate modeling software to support this work (https://alleninstitute.github.io/bmtk/index.html) Job Responsibilities: - Join ongoing efforts on building and simulating models of cortical areas in the mouse visual cortex, using point-neuron and biophysically detailed (compartmental) approaches. - Use these models to explore mechanisms underlying neural activity and computations observed in vivo in the context of a behavioral task; the aim is to provide mechanistic predictions for subsequent experimental testing by in-house collaborators. - Collaborate with in-house theoreticians and experimentalists to test hypotheses about cortical computations and algorithms in realistic models and in experiments. - Contribute to the development of modeling and analysis software. - Publish/present findings in peer-reviewed journals/scientific conferences. Basic Qualifications: - PhD degree in Neuroscience, Physics, Mathematics, Applied Mathematics, Bioengineering, or related field. SCIENTIST I: 0-2 years postdoctoral experience in computational science SCIENTIST II: 3+ years postdoctoral experience in computational science Desired Qualifications: - Experience in computational neuroscience and/or systems neuroscience is preferred, but other strong applicants will be considered (with background in computational physics, biophysics, and related disciplines). - Candidates with strong background in experimental systems neuroscience, willing to switch to computational work, are encouraged to apply. - Experience with parallel computing is a plus, as well as experience with programming in Python and/or MATLAB. - Experience with models of neurons/neuronal circuits is a plus. - Ability to meet aggressive timelines and deliverables in a collaborative environment is required. - Strong publication record. - Excellent written and verbal communication skills. It is the policy of the Allen Institute to provide equal employment opportunity (EEO) to all persons regardless of age, color, national origin, citizenship status, physical or mental disability, race, religion, creed, gender, sex, sexual orientation, gender identity and/or expression, genetic information, marital status, status with regard to public assistance, veteran status, or any other characteristic protected by federal, state or local law. In addition, the Allen Institute will provide reasonable accommodations for qualified individuals with disabilities. Anton Arkhipov Associate Investigator T: 206.548.8414 antona(a)alleninstitute.org<mailto:antona@alleninstitute.org> Allen Institute for Brain Science www.alleninstitute.org<http://www.alleninstitute.org/>

April 18, 2018

2018 NEURON Summer course

by Ted Carnevale

The 2018 NEURON Summer Course will be held at Emory University in Atlanta, Georgia, from Monday, August 6, through Saturday, August 11. The course will present a thorough introduction to computational modeling of neurons and networks with NEURON, and is suitable for individuals at all levels of expertise. This year continues the 6 day curriculum we introduced last year in order to provide expanded coverage of parallel simulation, and to give participants more time for active learning exercises. The registration deadline is Monday, July 16, 2018. No applications will be accepted after that date, and there will be no on-site registration. Space is limited, and applications will be considered in the order received. For more information and the on-line registration form, see http://www.neuron.yale.edu/neuron/static/courses/summer2018/summer2018.html --Ted

April 18, 2018

[Jobs] Postdoctoral Fellowships at IBEC BEST Programme (Bioengineering Excellence Scientific Training)

by Vasiliki Vouloutsi

Dear colleagues, We are looking for a highly motivated postdoctoral candidate with expertise in software engineering and robotics. * *The successful candidate will have the opportunity to join theSPECS-lab group (http://www.ibecbarcelona.eu/specs <http://www.ibecbarcelona.eu/specs>), In Barcelona, Spain*,* and work in an exciting and multidisciplinary environment with different types of robotics platforms including the iCub robot. * * *IBEC’s Programme in Bioengineering Excellence Scientific Training (BEST) aims to attract international experienced researchers in the areas of Nanomedicine, Cell Engineering and ICT for Health, the three research Flagships at the Institute.* * * *The details of the call and instructions for applicants can be found online at * http://www.ibecbarcelona.eu/postdoctoral-fellowships-at-ibec-best-programme…<http://www.ibecbarcelona.eu/postdoctoral-fellowships-at-ibec-best-programme…> *Interested applicants should fill** the application form*https://careers.ibecbarcelona.eu <https://careers.ibecbarcelona.eu/>*before April, 30**th 2018.* For more information please contact: GuillermoTalavera, PhD Project Manager E-mail:gtalavera@ibecbarcelona.eu <mailto:gtalavera@ibecbarcelona.eu> Research Affairs Institute forBioEngineeringof Catalonia (IBEC) Phone: +34 934 031 964 Fax: +34 934 039 702 Web:http://www.ibecbarcelona.eu/ <http://www.ibecbarcelona.eu/> Kind regards, -- Vicky Vouloutsi, PhD Postdoc Researcher at the laboratory for Synthetic Perceptive, Emotive and Cognitive Systems (SPECS <http://specs-lab.com/>) mail: vvouloutsi(a)ibecbarcelona.eu <mailto:vvouloutsi@ibecbarcelona.eu> LinkedIn <https://www.linkedin.com/in/vicky-vouloutsi-28496133/> researchgate <https://www.researchgate.net/profile/Vasiliki_Vouloutsi>

April 18, 2018

postdoc positions in statistical neuroscience

by xaq pitkow

Several postdoctoral research positions in Statistical Neuroscience POSITION: We seek several highly motivated postdoctoral research fellows for a collaborative team project building statistical tools for interpreting large scale neural recordings. The fellows will develop new methods and applications of probabilistic graphical models to infer statistical interactions amongst neurons and with the sensory environment. The tools will be validated in neural network simulations, tested in physiological recordings, and made widely available to the neuroscience community for understanding data from next-generation experiments. TEAM: Fellows will join principal investigators and theorists Krešimir Josić, Genevera Allen, Xaq Pitkow, Ankit Patel, and Robert Rosenbaum. The team will interact closely with experimentalists including co-investigator Andreas Tolias and several other labs interested in applying novel methods we develop. Fellows will also be members of the new Center for Neuroscience and Artificial Intelligence housed at the Baylor College of Medicine and supported in part by the NSF NeuroNex program. The Center brings together interdisciplinary researchers from across Houston, including members from Baylor College of Medicine, Rice University, University of Houston, and University of Texas Health Sciences. Researchers at the Center contribute diverse expertise in fields including neuroscience, machine learning, statistics, physics, computer science, electrical engineering, and applied mathematics. QUALIFICATIONS: Candidates must have outstanding mathematical skills, a PhD in a relevant quantitative discipline, and expertise in probabilistic graphical models or statistical machine learning. APPLYING: Applicants should email a letter of research interests and CV to Camila Lopez (Camila.Lopez(a)bcm.edu) along with contact information for three references. We look forward to hearing from you!

April 18, 2018

Fully funded PhD position to study neural coding - IIT Rovereto (Italy)

by Stefano Panzeri

I am seeking candidates for fully funded PhD positions at the Italian Institute of Technology’s in the lab directed by Stefano Panzeri ( https://www.iit.it/people/stefano-panzeri ) and located in Rovereto (Trento), Italy. IIT collaborates with University of Trento and funds these positions at the PhD course in Cognitive and Brain Sciences. The PhD project can focus on any of the research topics about neural information processing that are of interest to both the candidate and my lab, including: developing mathematical analysis methods and neural network models for studying neural population coding during cognitive tasks, for studying the neural bases of sensory perception and decision making, for linking functional to anatomical connectivity with cellular resolution at the neural population level, and for determining the best theoretical framework to combine recording of neural activity (calcium imaging, electrophysiology, EEG) and intervention on it (optogenetics, TMS). My computational neuroscience lab has developed long-term collaboration with many experimental laboratories including Christopher Harvey and Wei Lee (Harvard Medical School), Nikos Logothetis (Tuebingen), Tommaso Fellin (IIT), Mathew Diamond and Davide Zoccolan (SISSA), Alex Thiele (Newcastle) and others. The PhD project will likely involve collaborations with one or more experimental lab. For recent representative publications please see: van Vugt B, et al, (2018) Science: in press. DOI: 10.1126/science.aar7186 Zaldivar, D., et al, (2018) Current Biology 28: 224-235 Runyan C. A., et al (2017) Nature: 548: 92-96 Panzeri, S, et al (2017) Neuron 93: 491-507 Safaai, H. et al (2015) Proc. Natl. Acad. Sci. USA 112(41): 12834–12839 Fasoli, D. et al (2016) PLoS Computational Biology, 12(8): e1004992. Panzeri, S., et al (2015) Trends in Cognitive Sciences 19: 162-172 Einevoll, G., et al (2013) Nature Reviews Neuroscience, 14, 770-785 The ideal candidate should have a strong background in numerate sciences, and have a strong propensity for interdisciplinary research. No extensive previous experience in neuroscience is needed. However, a keen interest in understanding the brain is essential. The deadline for the formal application will be set to May 31st 2018, but interested candidates are invited me to contact me informally by email ( stefano.panzeri(a)iit.it) *as soon as possible,* and no later than May 1st 2018, by attaching their CV and briefly explaining their interest in this position, to initiate discussion about potential PhD projects of interest. In order to formally apply to the PhD Position, candidates will then need to refer to the call published by Università degli Studi di Trento (see http://www.unitn.it/drcimec/topic-specific-grants ). The PhD positions available for projects under my supervision are those entitled “Neural Coding” and “Computational cognitive neuroscience” Yours truly, Stefano Panzeri

April 17, 2018