- Comp-neuro - lists.cnsorg.org

NEST 2.16.0 released
by Hans Ekkehard Plesser Aug. 21, 2018

Aug. 21, 2018

Dear colleagues! I am very excited to inform you that we have released version 2.16.0 of NEST, the Neural Simulation Tool, today. NEST 2.16.0 is the result of 89 merged pull requests by 39 developers since we released NEST 2.14.0 in October 2017. Most notably, this release includes a new infrastructure for the storage of connections, which reduces the memory consumption and network build times (Jordan et al., 2018) and extends the rate model framework for novel use-cases (Senden et al., 2018). As usual, it also includes numerous bug fixes and minor improvements. At the same time, the we have tried to minimize changes to the user interface, so scripts that worked with NEST 2.14.0 should work with NEST 2.16.0 as well. One exception is that global spike detectors have been removed, but this should be relevant only for users on petascale machines. For a detailed list of changes, please see https://github.com/nest/nest-simulator/releases/tag/v2.16.0 The citation for NEST 2.16.0 is Linssen, Charl, Lepperød, Mikkel Elle, Mitchell, Jessica, Pronold, Jari, Eppler, Jochen Martin, Keup, Chrisitan, … Plesser, Hans Ekkehard. (2018, August 27). NEST 2.16.0 (Version 2.16.0). Zenodo. http://doi.org/10.5281/zenodo.1400175 We would like to encourage you to switch to NEST 2.16.0 as soon as possible and are looking forward to hearing about your experiences! On behalf of the NEST Initiative, I would like to thank all developers who have contributed to NEST 2.16.0 and especially our release managers Dennis Terhorst and Jochen Eppler for wrapping it all up! Best regards, Hans Ekkehard Plesser President, The NEST Initiative -- Dr. Hans Ekkehard Plesser Associate Professor Faculty of Science and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway Phone +47 6723 1560 Email hans.ekkehard.plesser(a)nmbu.no Home http://arken.nmbu.no/~plesser

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Human Neocortical Neurosolver: A new tool for circuit level investigation of MEG/EEG data
by Stephanie Jones Aug. 21, 2018

Aug. 21, 2018

We are excited to announce the first release of a new user-friendly software package for circuit level interpretation of human EEG/MEG data: Human Neocortical Neurosolver (HNN). The foundation of HNN is a computational neural model that simulates the electrical activity of the neocortical cells and circuits that generate the primary electrical currents underlying EEG/MEG recordings. HNN is a free open source package that was designed for researchers and clinicians, without computational neural modeling experience, to develop and test hypothesis on the circuit origin of their data. We provide tutorials on how to import your data and to begin to understand the underlying neural mechanisms. The tutorials focus on some of the most commonly measured signals, including event related potentials and low frequency alpha, beta and gamma rhythms. We are eager to help users get started and have developed a user forum for feedback and questions. HNN is distributed at https://hnn.brown.edu <https://hnn.brown.edu/>. HNN is being developed by a collaborative team at Brown, MGH and Yale. HNN developments are funded by the National Institute of Biomedical Imaging and Bioengineering through the BRAIN Initiative: Theories, Models, and Methods of Analysis of Complex Data from the Brain. ******************************************* Stephanie R. Jones, PhD - on behalf of the development team Associate Professor Brown University Department of Neuroscience Stephanie_Jones(a)Brown.edu https://www.brown.edu/research/labs/jones/

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Full-time industry position: Computational Neuroscience / Neuromorphic Machine Learning
by Dylan Muir Aug. 17, 2018

Aug. 17, 2018

aiCTX is an ultra-low-power neuromorphic computing startup / spin-off of the Institute of Neuroinformatics of the University of Zurich and the ETH Zurich. aiCTX has an immediate opening for a Neuromorphic Machine Learning R&D Engineer We are looking particularly for comp. neurosci. researchers, with a background in theory and/or modelling of spiking neural networks. This position is for a full-time on-going contract, in Zürich Switzerland. We also have paid internships available for qualified candidates. Please see the job posting for more details, and to apply: http://bit.ly/aiCTX_job2 <http://bit.ly/aiCTX_job2>

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Funded mathematics PhD position - Designing the dynamics of coupled oscillators - University of Exeter
by Purcell, Sarah Aug. 17, 2018

Aug. 17, 2018

Funded mathematics PhD position - Designing the dynamics of coupled oscillators University of Exeter<https://www.exeter.ac.uk/>, UK Supervisors: - Dr Christian Bick<http://empslocal.ex.ac.uk/people/staff/cb618/> - Dr Kyle Wedgwood <http://emps.exeter.ac.uk/mathematics/staff/kcaw201> The University of Exeter's College of Engineering, Mathematics and Physical Sciences is inviting applications for a fully-funded PhD studentship to commence in September 2018 or as soon as possible thereafter. For eligible students the studentship will cover tuition fees in full plus an annual tax-free stipend of at least £14,777 for 3.5 years full-time, or pro rata for part-time study. The student would be based in the Department of Mathematics in the College of Engineering, Mathematics and Physical Sciences in Exeter. Networks of interacting oscillatory units are abundant in nature and technology. Their function and dynamics governs crucial aspects of our lives, ranging from the stability of power grids to the dynamics of the human brain. The dynamics of oscillator networks depends on (1) which oscillators interact with which other oscillator and (2) how oscillators interact with one another. This project will contribute to the question how the interplay between these two factors shape the network dynamics. The main aim of this PhD project is to develop theoretical and numerical approaches how oscillator networks can be designed to have specific interactions. This will allow to generate networks that exhibit a range of synchronized and locally synchronized dynamics. Moreover, the supervisor is currently collaborating with the experimental group of Istvan Z Kiss in St Louis (USA) who are working on electrochemical oscillators. Hence, there may be an opportunity to help implement the theoretical results in real-world experimental systems. The studentship will be awarded on the basis of merit for 3.5 years of full-time study to commence in September 2018 or on a mutually agreed date as soon as possible thereafter, and is subject to confirmation of funding. For full details please see the PhD advert<https://www.exeter.ac.uk/studying/funding/award/?id=3189>. If you have any questions, please get in touch with Dr Christian Bick<http://empslocal.ex.ac.uk/people/staff/cb618/> or Dr Kyle Wedgwood. <http://emps.exeter.ac.uk/mathematics/staff/kcaw201>

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Postdoc available in Brinkman group at Stony Brook University
by Braden Brinkman Aug. 16, 2018

Aug. 16, 2018

A postdoctoral position is available in Braden Brinkman's group in the Department of Neurobiology and Behavior at Stony Brook University, located on Long Island in New York State. The Brinkman group studies mathematical models of sensory coding and network dynamics, with a focus on how environmental and physiological constraints shape coding and computation in the brain. For more information on our work and the department, please visit https://medicine.stonybrookmedicine.edu/node/14355 Candidates must have a strong background in quantitative methods; background in statistical physics is a plus. Please submit applications through Stony Brook's jobs portal here (job # 1802370): https://stonybrooku.taleo.net/careersection/post_docs/jobdetail.ftl?job=180… Complete applications must include 1. C.V. including a list of publications/preprints, research experience, and education 2. A 1-2 page summary of previous research accomplishments 3. A 1-2 page description of future research goals and interests 4. 2-3 references letters from scientists familiar with the candidates work Items 1-3 may be attached through the online application portal. Letter writers should send letters directly to braden.brinkman(a)stonybrook.edu Deadline for applications is Sept 1. Please email braden.brinkman(a)stonybrook.edu with any questions.

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Contrat post-doctorant 2018-2020 - Laboratoire FrontLAB, Institut du Cerveau et de la Moelle Epinière (ICM), PARIS (FR)
by Bénédicte BATRANCOURT Aug. 16, 2018

Aug. 16, 2018

*Contrat post-doctoral 2018-2020* Laboratoire FrontLAB, Institut du Cerveau et de la Moelle Epinière (ICM), PARIS Inserm, U 1127, CNRS, UMR 7225, Sorbonne Universités, UPMC Univ Paris 06, UMR S 1127 https://icm-institute.org/fr/ L’Institut du Cerveau et de la Moelle épinière (ICM) est un centre de recherche de dimension internationale, innovant dans sa conception comme dans son organisation. En réunissant en un même lieu malades, médecins et chercheurs, l’objectif est de permettre la mise au point rapide de traitements pour les lésions du système nerveux afin de les appliquer aux patients dans les meilleurs délais. D’un point de vue scientifique, les équipes de recherche sont indépendantes, mais alliées entre elles par des Programmes Transversaux de Recherche favorisant la mutualisation des compétences. La recherche se décline selon trois modèles : la recherche fondamentale orientée vers les domaines fondamentaux d’une discipline, la recherche clinique dans laquelle le sujet participe à des protocoles pour améliorer la connaissance d’une pathologie ou d’une thérapeutique et la recherche translationnelle qui permet aux patients de bénéficier plus rapidement des innovations diagnostiques et thérapeutiques. La recherche à l’ICM couvre 4 domaines scientifiques majeurs : Neurosciences Moléculaires et Cellulaires, Neurophysiologie intégrée, Neurosciences Cognitives, Neurosciences Cliniques et Translationnelles. Dans notre équipe FRONTlab (Richard LEVY, Bruno DUBOIS), nous travaillons sur les fonctions mentales élaborées par les lobes frontaux. L’un des enjeux majeurs des neurosciences est de connaître en profondeur les fonctions frontales afin de *comprendre comment sont élaborés et contrôlés nos comportements les plus complexes* (prise de décision, planification raisonnement, créativité, jugement moral, interactions sociales…). Une connaissance approfondie des lobes frontaux est aussi indispensable pour mieux traiter les nombreuses maladies neurologiques et psychiatriques s’accompagnant d’une atteinte des lobes frontaux (maladie d’Alzheimer, AVC, traumatismes crâniens, dépression, schizophrénie…). Nos objectifs sont de mieux cerner l’implication des lobes frontaux dans le comportement humain et les fonctions intellectuelles les plus élaborées, et de transférer les connaissances acquises vers la pratique médicale. Nous proposons un contrat de postdoctorant de 2 ans afin de participer au développement du projet ECOCAPTURE, permettant d’évaluer l’apathie de façon quantitative et objective, par l’observation du sujet en condition proche de la vie réelle. L’étude ECOCAPTURE se déroule dans la plate-forme de recherche de psychologie expérimentale de l'ICM (PRISME) qui est consacrée à l'exploration fonctionnelle du comportement humain dans des situations écologiques. L’étude ECOCAPTURE a débuté en septembre 2017, et porte sur 75 patients (Démence Fronto-Temporale, Parkinson, Dépression) et 60 volontaires sains. A ce jour 16 participants ont été inclus (8 patients et 8 volontaires sains). Dans cette étude et la phase dite de laboratoire, *l’apathie est évaluée en condition observationnelle* grâce à un système qui enregistre le comportement du sujet à l’aide d’un système à base de vidéo et de capteurs, durant une session expérimentale de 45 mn « proche de la vie réelle » qui se déroule dans une salle d’attente, selon un scénario contrôlé. L’objectif principal de l’étude ECOCAPTURE est de montrer que l’outil ECOCAPTURE basé sur des enregistrements vidéo et des capteurs d’activité et de mouvements, possède une valeur d’outil diagnostique de l’apathie. La méthode générale concerne en l’extraction de métriques comportementales à partir des données vidéo et des données extraites d’un accéléromètre 3D afin de différencier le comportement des patients de celui des sujets volontaires sains. L’étude ECOCAPTURE est la première étape d'un programme en trois phases visant à mieux évaluer l'apathie en situation « proche de la vie réelle » et à proposer de nouveaux traitements. La première phase dite « de laboratoire » a pour objectif la mise en œuvre d’un outil diagnostic de l'apathie produisant une « signature simple du comportement dirigé vers un but » ou « signature comportementale de l’apathie » permettant d'évaluer l'apathie, en situation de vie quotidienne, de façon objective (un marqueur d'apathie). Nous espérons que la création et la validation de cet outil ECOCAPTURE rendra possible dans une deuxième phase, son utilisation en clinique ainsi qu’une évaluation au domicile *ECOCAPTURE@home* avec un système de capteurs embarqués : un « holter d'apathie ». Une troisième phase visera à proposer un traitement des conséquences de l'apathie dans la vie quotidienne. L’objectif de ce contrat postdoctoral est de développer la deuxième phase : *ECOCAPTURE@home*. Nous recherchons un candidat titulaire d’un doctorat en neurosciences, sciences cognitives ou en bioinformatique, de formation : psychologue, neuropsychologue, neurologue, psychiatre, éthologue ou ingénieur biomédical. Le candidat devra posséder plusieurs compétences parmi la liste suivante : neuropsychologie, éthologie, mesure du comportement, instruments neuropsychologiques, qualités psychométriques d’un outil d’évaluation, capteurs et actigraphie, statistiques, fusion de données, classification. Une bonne connaissance de la langue française est indispensable afin de permettre les interactions avec les patients et leurs aidants. Ce contrat permettra à un chercheur motivé de participer à un projet multidisciplinaire et très original, de collaborer avec des chercheurs de disciplines diverses, de bénéficier d’un environnement scientifique international et stimulant, et de participer à la vie de l’équipe FrontLAB constituée d’un groupe de 12 PI chacun responsable d’un projet dédié à la compréhension du lobe frontal, et accueillant chaque année de nombreux étudiants. *La rémunération sera établie en fonction du barème de rémunération des contractuels Inserm* Merci d’envoyer votre CV avec une lettre de motivation et les noms et emails de deux personnes de référence à Bénédicte BATRANCOURT ( benedicte.batrancourt(a)upmc.fr) avant le 30 septembre 2018. Bénédicte Batrancourt ICM, UPMC, INSERM UMR_S 1127, CNRS UMR 7225 Hôpital Pitié-Salpêtrière 47 Boulevard de l’Hôpital F-75651 PARIS Cedex 13 Tel : 01 57 27 41 59 Tel : 06 60 44 79 79 benedicte.batrancourt(a)upmc.fr http://icm-institute.org ----------------------------------- Afin de contribuer au respect de l'environnement, merci de n'imprimer ce mail qu'en cas de nécessité.

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Up to 8 PhD fellowships in Cognitive Neuroscience at SISSA, Trieste, Italy
by Alessandro Treves Aug. 16, 2018

Aug. 16, 2018

SISSA is an elite postgraduate research institution, focused on Maths, Physics and Neuroscience. It operates in English: many among its students and faculty are not Italian. Campus above Trieste, overlooking the Gulf. Research approaches in the CNS PhD https://phdcns.sissa.it/ span the range from cognitive psychology and imaging in humans to behavioural neuroscience and multiple single-unit recording in rats, mathematical and computational modeling; with research groups led by Domenica Bueti, Davide Crepaldi, Mathew Diamond, Chris Mathys, Raffaella Rumiati, Alessandro Treves and Davide Zoccolan. Allied approaches are pursued in other SISSA PhDs. All admitted students receive a 4-year fellowship and engage full-time in research based in Trieste, with limited coursework in the first few months, talks and seminars throughout the year and a TEX event in the summer, see https://indico.sissa.it/event/26/ First deadline for EU candidates: March 2, 2018, for nonEU: March 31, 2018 -- 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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Save the date ICTALS2019 (IWSP9), Exeter, UK, September 2nd – 5th 2019
by Goodfellow, Marc Aug. 15, 2018

Aug. 15, 2018

Dear All, The International Conference for Technology and AnaLysis of Seizures, 2019 (ICTALS2019) will take place at the University of Exeter, September 2nd – 5th 2019. The goal of this conference is to bring together neurologists, neuroscientists, researchers from quantitative disciplines and people with lived experience of epilepsy in order to work as a community to advance our understanding of epilepsy and develop practical ways to improve diagnosis and treatment. This is the second ICTALS conference, which is an evolution of the previous International Workshop on Seizure Prediction (IWSP) series. The theme for this year’s conference will be: “The Epilepsy Journey: from first seizure to treatment and beyond”. We will emphasise how advances in our understanding of the dynamics of brain networks can be used to make a difference to people with epilepsy at all points of their journey: from elucidating the causes of the first seizure to diagnosing epilepsy, understanding how ictogenic networks give rise to recurrent seizures and how this insight can inform personalised treatment. To encourage this focus on translatable output of research we will seek to include all relevant communities. In addition to focussing on current scientific, clinical and technological advances, we will take steps to increase accessibility for people with lived experience of epilepsy. We have begun to create a webpage for the conference, which we will populate with further information in due course. You can find this at: http://exeter.ac.uk/ictals2019 In the mean time, please save the date above in your diary and we will follow up with further information, including registration and programs over the next few months. Best wishes Marc Goodfellow (on behalf of the local organising committee). https://emps.exeter.ac.uk/mathematics/staff/mg401

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MRC Skills Development Fellowships at the University of Exeter
by Purcell, Sarah Aug. 15, 2018

Aug. 15, 2018

Dear Colleagues, The University of Exeter<http://www.exeter.ac.uk/> is delighted to be partnering with the Medical Research Council<https://mrc.ukri.org/> (MRC) to offer exceptional candidates the opportunity to hold a 3 year Skills Development Fellowship, commencing between November 2018 and March 2019. MRC Skills Development Fellowships are prestigious personal awards, aimed at exceptional early career researchers with a strong background in mathematical, statistical, computational or biophysical modelling and analysis, or for more advanced researchers from a biomedical or clinical background who are seeking to develop strong quantitative skills. The University of Exeter has a wide variety of opportunities to develop these quantitative skills in the context of neuroscience and neurology, endocrinology and metabolism, and primary care population and health services research. Successful applicants will be housed within the brand new £52M Living Systems Institute<https://www.exeter.ac.uk/livingsystems/> where they will be co-located with 8 other MRC Fellowship holders. They will receive 3 years of funding with substantial budgets for travel, skills development and consumables as determined by their project needs. As part of the Fellowship candidates will also have the opportunity to spend up to a year in an internationally leading second research centre. Additionally, candidates will receive a £5,000 career development budget from the University of Exeter. Full details of this opportunity are available from www.exetermrcsdf.ac.uk<http://www.exetermrcsdf.ac.uk/> and in the information video<https://youtu.be/LKgl1WqiRgU>. Applications are now open with a closing date of 13th September 2018. Please do share these details with any potentially interested parties.

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Funded postdoc positions: Synaptic and network mechanisms of visual perception
by Haider, Bilal Aug. 14, 2018

Aug. 14, 2018

The Haider Lab in the Dept. of Biomedical Engineering (BME) at Georgia Tech & Emory University seeks highly motivated and skilled postdoctoral fellows for a 3-5 year NIH funded project examining synaptic and network mechanisms supporting sensory perception. The position is available immediately and conforms to NIH standards for salary and benefits. The project offers significant opportunity to use cutting-edge research techniques in vivo during visual perception. These include 1) neural population recording with high-density silicon electrodes, 2) optogenetic circuit manipulation, and 3) whole-cell patch-clamp recording during behavior. The ideal candidate has expertise in patch clamp or multi-electrode electrophysiology in vitro or in vivo, and quantitative skill in data acquisition and analysis (preferably with MATLAB). Candidates should have excellent written and verbal communication skills, an inquisitive mindset, and enthusiasm to work in a multi-disciplinary team. The position is funded for up to 5 years, pending satisfactory performance upon annual review. We are enthusiastic to form a diverse, international research group. All candidates will be mentored for independent career development. There is a strong, multidisciplinary concentration of labs focusing on Neuroscience at GT and at Emory. Atlanta is vibrant, green, diverse, and one of the most affordable and livable major cities of the US. Applications should include a CV, a brief statement of research goals, expected date of availability, and names and contact information of three references. Please email materials to bilal.haider(a)bme.gatech.edu Further information and recent lab publications can be found at haider.gatech.edu Bilal Haider, Ph.D. Assistant Professor Coulter Dept. of Biomedical Engineering Georgia Tech & Emory University 313 Ferst Drive, Suite 3104 Atlanta, GA 30332 tel: +1 404 385 4935 fax: +1 404 385 5044 site: haider.gatech.edu<http://haider.gatech.edu/> twitter: @haiderlab<https://twitter.com/haiderlab>

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