February 2015 - Comp-neuro - lists.cnsorg.org

Postdoctoral position in Computational Neuroscience at IUPUI
by Yaroslav Molkov 27 Feb '15

27 Feb '15

A postdoctoral/research associate position in computational neuroscience is available immediately in the NIH funded project focusing on multiscale computational modeling of interactions between respiratory central pattern generator and sympathetic nervous system as it relates to neurogenic hypertension. This collaborative project is performed by the groups of Yaroslav Molkov (Dept. of Mathematical Science, Indiana University – Purdue University, Indianapolis, IN, USA), Ana Abdala (University of Bristol, UK) and Daniel Zoccal (Sao Paulo State University, Brazil). Excessive sympathetic activity plays a crucial role in the development and maintenance of hypertension. Such autonomic dysfunction is observed in hypertensive patients with obstructive sleep apnea (OSA). Chronic exposure to intermittent hypoxia (CIH) that occurs in OSA is the main factor leading to sympathetic overactivity and hypertension. A CIH-driven increase in sympathetic output is largely dependent on the emergence of active expiratory pattern. The respiratory central pattern generator (rCPG) is composed of two interacting oscillators. The first occupies Bötzinger/pre-Bötzinger complexes and generates self-sustained respiratory rhythm controlling the diaphragm to provide inspiration. The second oscillator, the parafacial respiratory group (pFRG), resides in the retrotrapezoid nucleus (RTN). The RTN/pFRG oscillations emerge in hypoxic and hypercapnic conditions, and drive motor output to abdominal muscles for active (forced) expiration. Interactions of these respiratory circuits with the sympathetic neurons of the rostral and caudal ventrolateral medulla evoke respiratory-related oscillations in sympathetic efferent drive. Exposure to CIH leads to alterations in excitability of RTN/pFRG neuronal population and/or modifications in synaptic connections between respiratory oscillators and sympathetic neurons which ultimately results in the elevated baseline sympathetic activity and arterial pressure. This interdisciplinary project aims to reveal the mechanisms that couple breathing and control of blood pressure in the brain in health and disease, and for the first time translate them into a realistic computational model. Such a model will have the unprecedented potential for generating effective non-pharmacological means of controlling blood pressure and breathing via implantable biofeedback devices (e.g. vagus nerve stimulation) and non-invasive devices for guided control of autonomic function (e.g. device-guided paced respiration). Furthermore, it will provide a robust scientific substrate for evaluating the usefulness and safety of alternative medicine interventions, such as controlled breathing practices, for lowering blood pressure and improving heart rate variability. Applicants must have a PhD degree in Neuroscience, Applied Mathematics, Physics, or a related discipline and have excellent programming skills (C++, Matlab, UNIX). Previous experience in computational neuronal modeling is a plus. Interested candidates are encouraged to contact Dr. Molkov ( ymolkov(a)iupui.edu) by email. To apply, please send an email along with (1) curriculum vitae; (2) a cover letter describing previous research experience and interests; (3) the names and contact information of three references. Application processing will begin immediately and the search will remain open until the position is filled. Best Regards, Yaroslav Molkov, Ph.D. Assistant Professor Indiana University - Purdue University Indianapolis Department of Mathematical Sciences 402 N. Blackford St, LD 270, Indianapolis, IN 46202 Office: LD 224U Phone: (317) 274-6934 Fax: (317) 274-3460 Email: ymolkov(a)iupui.edu

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Postdoctoral positions available in Sophie Deneve's team, Group for Neural Theory, Ecole Normale supérieure, Paris
by Sophie Deneve 26 Feb '15

26 Feb '15

Two postdoctoral positions are available in the group of Sophie Deneve, Ecole Normale supérieure Paris. Positions are for one year, renewable one year, and comes with competitive salary and generous equipment and travel funds. The team is part of the “Group for neural theory” ( http://iec-lnc.ens.fr/group-for-neural-theory/) and surrounded by top-level theoretical and experimental labs. Candidates are expected to have a solid training in the field of computational neuroscience, proven quantitative and programming skills and a strong interest in integrative/cognitive neuroscience. Starting dates are flexible, but should preferentially occur before September 2015. Possible projects include: Starting from the hypothesis that biological networks are optimally tuned to maximize coding efficiency and robustness, we will design new tools to analyze their dynamics and function. We will identify functionally relevant, low-dimensional structures in large neural datasets (spontaneous and stimulus-driven multi-unit activity in retina, visual cortex, and/or in Zebrafish whole brain recordings). Sensory neurons are often described in terms by their receptive fields. On the other hand, “generative models” (and more generally, efficient coding) assume that neurons collectively try to predict their stimuli. In such scenarios, prior assumptions, metabolic constrains and context deeply reshape neural selectivity. We will consider implications for learning, attentional modulation and/or hierarchical neural processing. Candidates should send their application to sophie.deneve(a)ens.fr by *March 31, 2015*. Please mention “postdoctoral candidate” in the subject of the email. Application should take the form of a single PDF file, containing a CV, motivation letter, names and email addresses of 2 to 3 referees. No official letter of recommendations are required, as the referee will be contacted directly. Best wishes, -- Dr Sophie Deneve Group for Neural Theory Laboratoire de Neurosciences cognitives ENS-INSERM 29, rue d'Ulm, 75005 Paris, France Tel. (+33) (0)1 44 32 26 35

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New Paper on Network Dynamics of the Human Brain
by Xerxes D. Arsiwalla 26 Feb '15

26 Feb '15

Dear Colleagues, For your interest, our paper on dynamics of the human connectome is now available open access. http://journal.frontiersin.org/article/10.3389/fninf.2015.00002/abstract Network Dynamics with BrainX3: A Large-Scale Simulation of the Human Brain Network with Real-Time Interaction Arsiwalla XD, Zucca R, Betella A, Martinez E, Dalmazzo D, Omedas P, Deco G and Verschure PFMJ (2015) Front. Neuroinform. 9:02. doi: 10.3389/fninf.2015.00002 Abstract BrainX3 is a large-scale simulation of human brain activity with real-time interaction, rendered in 3D in a virtual reality environment, which combines computational power with human intuition for the exploration and analysis of complex dynamical networks. We ground this simulation on structural connectivity obtained from diffusion spectrum imaging data and model it on neuronal population dynamics. Users can interact with BrainX3 in real-time by perturbing brain regions with transient stimulations to observe reverberating network activity, simulate lesion dynamics or implement network analysis functions from a library of graph theoretic measures. BrainX3 can thus be used as a novel immersive platform for exploration and analysis of dynamical activity patterns in brain networks, both at rest or in a task-related state, for discovery of signaling pathways associated to brain function and/or dysfunction and as a tool for virtual neurosurgery. Our results demonstrate these functionalities and shed insight on the dynamics of the resting-state attractor. Specifically, we found that a noisy network seems to favor a low firing attractor state. We also found that the dynamics of a noisy network is less resilient to lesions. Our simulations on TMS perturbations show that even though TMS inhibits most of the network, it also sparsely excites a few regions. This is presumably due to anti-correlations in the dynamics and suggests that even a lesioned network can show sparsely distributed increased activity compared to healthy resting-state, over specific brain areas.

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Workshop announcement: HBP Hippocamp CA1
by Szabolcs Káli 26 Feb '15

26 Feb '15

Dear Colleagues, Registration is now open for the workshop "HBP Hippocamp CA1: Collaborative and Integrative Modeling of Hippocampal Area CA1", to be held March 31st - April 1st, 2015 at UCL School of Pharmacy in London, supported by the Human Brain Project (www.humanbrainproject.eu) In short, the aims of the workshop are two-fold. First, to engage the larger community of experimentalists and modelers working on hippocampus, and highlight existing modeling efforts and strategic datasets for modeling hippocampal area CA1. Second, to define and bootstrap an inclusive community-driven model and data-integration process to achieve open pre-competitive reference models of area CA1 (and, ultimately, the rest of the hippocampus), which are well documented, validated, and released at regular intervals (supported in part by IT infrastructure funded by HBP). Involvement from the community interested in characterization and modeling of the hippocampus is highly encouraged. To keep the meeting focused on the task, participation will be limited to ~30 people, so registration is required. Please consult the meeting website at http://neuralensemble.org/meetings/HippocampCA1/ for registration and further details. Organizing committee: Jo Falck (UCL), Szabolcs Káli (Hungarian Academy of Sciences), Sigrun Lange (UCL), Audrey Mercer (UCL), Eilif Muller (EPFL), Armando Romani (EPFL) and Alex Thomson (UCL). Best regards, Szabolcs Káli Laboratory of Cerebral Cortex Research Institute of Experimental Medicine Hungarian Academy of Sciences H-1083 Budapest Szigony utca 43. Phone: +36-1-2109413 Fax: +36-1-2109412 E-mail: kali.szabolcs(a)koki.mta.hu www.koki.mta.hu

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Tenth Advanced Statistics and Data Mining Summer School (Madrid, June 29th - July 10th, 2015)
by asdm＠fi.upm.es 26 Feb '15

26 Feb '15

Dear colleagues, The Technical University of Madrid (UPM) will once more organize the 'Advanced Statistics and Data Mining' summer school. The summer school will be held in Boadilla del Monte, near Madrid, from June 29th to July 10th. This year's edition comprises 12 week-long courses (15 lecture hours each), given during two weeks (six courses each week). Attendees may register in each course independently. No restrictions, besides those imposed by timetables, apply on the number or choice of courses. Early registration is now *OPEN*. Extended information on course programmes, price, venue, accommodation and transport is available at the school's website: http://www.dia.fi.upm.es/ASDM Please, forward this information to your colleagues, students, and whoever you think may find it interesting. Best regards, Pedro Larranaga, Concha Bielza, Bojan Mihaljevic and Laura Anton-Sanchez. -- School coordinators. *** List of courses and brief description *** * Week 1 (June 29th - July 3rd, 2015) * 1st session: 9:45-12:45 Course 1: Bayesian Networks (15 h) Basics of Bayesian networks. Inference in Bayesian networks. Learning Bayesian networks from data. Real applications. Practical demonstration: GeNIe, Weka, Bayesia, R. Course 2: Time Series(15 h) Basic concepts in time series. Descriptive methods for time series. Linear models for time series. Extensions. Practical demonstration: R. 2nd session: 13:45-16:45 Course 3: Supervised Pattern Recognition (15 h) Introduction. Assessing the performance of supervised classification algorithms. Preprocessing. Classification techniques. Combining multiple classifiers. Comparing supervised classification algorithms. Course 4: Bayesian Inference (15 h) Introduction: Bayesian basics. Conjugate models. MCMC and other simulation methods. Regression and Hierarchical models. Model selection. Practical demonstration: R and WinBugs. 3rd session: 17:00 - 20:00 Course 5: Neural Networks and Deep Learning (15 h) Introduction. Training algorithms. Learning and Optimization. MLPs in practice. Deep Networks. Course 6: Unsupervised Pattern Recognition (15 h) Introduction to clustering. Data exploration and preparation. Prototype-based clustering. Density-based clustering. Graph-based clustering. Cluster evaluation. Miscellanea. Conclusions and final advise. Practical session: R. * Week 2 (July 6th - July 10th, 2015) * 1st session: 9:45-12:45 Course 7: Statistical Inference(15 h) Introduction. Some basic statistical test. Multiple testing. Introduction to bootstrap methods. Introduction to Robust Statistics. Practical demonstration: R. Course 8: Bayesian Classifiers (15 h) Discrete predictors. Gaussian Bayesian networks-based classifiers. Other Bayesian classifiers. Bayesian classifiers for: positive and unlabeled data, semi-supervised learning, data streams, temporal data. Practical session: R. 2nd session: 13:45-16:45 Course 9: Text Mining (15 h) Introduction. Fundamentals. Language Modeling. String Processing. Text Classification. Information Extraction. Practical session: GATE (optionally, python). Course 10: Feature Subset Selection (15 h) Introduction. Filter approaches. Embedded methods. Wrapper methods. Advanced topics. Practical session: R and Weka. 3rd session: 17:00-20:00 Course 11: Support Vector Machines and Convex Optimization (15 h) Introduction. SVM models. SVM learning algorithms. Convex non differentiable optimization. Course 12: Hidden Markov Models (15 h) Introduction. Discrete Hidden Markov Models. Basic algorithms for Hidden Markov Models. Semicontinuous Hidden Markov Models. Continuous Hidden Markov Models. Unit selection and clustering. Speaker and Environment Adaptation for HMMs. Other applications of HMMs. Practical session: HTK.

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Call for Papers ( Frontiers in Computational Neuroscience): Special Issue on Neuropsychology through the lenses of Computational Modelling
by Eirini Mavritsaki 26 Feb '15

26 Feb '15

Call for Papers Special Issue in Frontiers in Computational Neuroscience 'Neuropsychology through the lenses of Computational Modelling' Extended Deadline for Abstract Submission 16th of March Computational modelling may provide an increasingly important tool for furthering neuropsychology and understanding brain impairments – but there remain many issues: how can different types of lesion be best modelled? What are the differences between damage to grey matter and to fibre tracts? What the effects of learning within damaged systems or systems where there is an imbalance in neurotransmitters? For this reason a special issue that brings together state-of-the-art papers on the computational modelling of neuropsychological disorders, with papers covering different levels of modelling (from spiking neurons to higher-level connectionist modelling), using imaging as well as behavioural data, and addressing a number of different disorders (attention, language, memory etc.) is expended to contribute significantly to the field of Neuropsychology and Computational Neuroscience. In collaboration with Frontiers in Computational Neuroscience, we are organizing a Research Topic titled "Neuropsychology through the lenses of computational modelling”, hosted by Eirini Mavritsaki, Glyn Humphreys. As host editor, I would like to encourage you to contribute to this topic. Frontiers, a Swiss open-access publisher, recently partnered with Nature Publishing Group to expand its researcher-driven Open Science platform. Frontiers articles are rigorously peer-reviewed, can be disseminated freely and are widely read by your colleagues and by the broader scientific and medical research communities. The idea behind a research topic is to create an organized, comprehensive collection of several contributions, as well as a forum for discussion and debate. Contributions can be articles describing original research, methods, hypothesis & theory, opinions, etc. We have created a homepage on the Frontiers website (Frontiers in Computational Neuroscience) where all articles will appear after peer-review and where participants in the topic will be able to hold relevant discussions: http://www.frontiersin.org/Computational_Neuroscience/researchtopics/Neurop…. Frontiers will also compile an e-book, as soon as all contributing articles are published, that can be used in classes, be sent to foundations that fund your research, to journalists and press agencies, or to any number of other organizations. As such, a manuscript accepted for publication incurs a publishing fee, which varies depending on the article type. Research Topic manuscripts receive a significant discount on publishing fees. Please take a look at this fee table: http://www.frontiersin.org/about/PublishingFees. Once published, your articles will remain free to access for all readers, and will be indexed in PubMed and other academic archives. As an author in Frontiers, you retain the copyright to your own papers and figures. I would be delighted if you considered participating in this Research Topic. Should you choose to participate, please confirm by sending me a quick email and then your abstract no later than Feb 16, 2015 using the following link: http://www.frontiersin.org/Computational_Neuroscience/researchtopics/Neurop… Please note that the deadline for manuscript submission is on: Jun 30, 2015 Since I am using the Frontiers system to manage this topic, I would really appreciate if you could also please indicate your decision by clicking on one of the links below. <<Variable for accept/decline links – do not edit!>> With best regards, Eirini Mavritsaki Guest Associate Editor, Frontiers in Computational Neuroscience www.frontiersin.org ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Eirini Mavritsaki, Ph.D., CPsychol Co-Director of the Centre for Applied Psychological Research (CAP Research) Business Development Coordinator for Social Sciences Senior Lecturer in Cognitive Psychology Faculty of Business Law and Social Sciences Birmingham City University D 3.17 Dawson Building City North Campus Perry Bar, Birmingham B42 2SU eirini.mavritsaki(a)bcu.ac.uk<mailto:eirini.mavritsaki@bcu.ac.uk> 0121 331 6361 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

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Master's program Cognitive sciences and technologies: from neuron to cognition
by Alex Ossadtchi 25 Feb '15

25 Feb '15

National Research University Higher School of Economics, Moscow invites applications for a 2-year Master's program Cognitive sciences and technologies: from neuron to cognition” The 2-year Master’s Program “Cognitive sciences and technologies: from neuron to cognition” invites highly-motivated students to apply. The English-speaking Master's Program is designed for students interested in connecting cognition, neuroscience and computer science. The earliest applications have the higher chances to get the total tuition fee exemption. Scholarships are also available. Leading European and Russian scientists form the HSE research center of excellence teach cognitive science, neuroimaging and modeling. Program’s Web site http://psy.hse.ru/cogito Application period for non-residents: January 1, 2015 - July 15, 2015. Early applications (before March 30) are encouraged. Location: The Higher School of Economics, Moscow, Russia. Additional info: http://www.hse.ru/ma/cogito/announcement Email: cogito(a)hse.ru

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Job opportunity
by jose luis perez velazquez 25 Feb '15

25 Feb '15

Please, post this job opportunity. Thanks Our group at the Hospital for Sick Children and the University Health Network in Toronto is offering a full-time research position for 2 years to work on the neurophysiological bases of hypnosis, starting around May 2015, with a stipend of $40,000/year. In this project we will investigate the neurophysical alterations that accompany hypnotic stages and simple memory tasks using intracranial electroencephalography (iEEG) in individuals undergoing standard clinical assessment for their epilepsy. While several studies have advanced the view that hypnosis results in the dissociation, or “disconnection”, between frontal cortices and other brain areas, this evidence has been mainly obtained with non-invasive recordings such as functional neuroimaging. iEEG provides an exceptional opportunity to investigate with high spatial and temporal resolution changes in activity associated with alterations in cognitive states, thus overcoming typical problems that arise during source reconstruction from non-invasive recordings. The experimental procedures that the incumbent will carry out include the preparation and coding of the tasks to be presented to patients during control and mental imagery relaxation states. The incumbent will thus be taught how to administer mental imagery relaxation techniques and associated technicalities involved in such activities. Data analysis will require experience with typical digital signal processing for brain recordings such as power spectra and coherence, among others. Some scripts are already available in MATLAB and FieldTrip for signal processing, and the incumbent will have the chance, and would be encouraged to create his/her own codes, with the assistance of the members of the team. There are two *absolute requirements* for the incumbent: first, an excellent knowledge of coding in MATLAB and willingness to implement experimental tasks using Presentation, PsychoPy, or Psychtoolbox and, second, the ability to learn how to put patients at ease and coach them through the mental imagery relaxation technique that will be taught by one of the members of our team who practices this in his clinic. Specific knowledge of neurophysiology is not required but it will facilitate the project. Nevertheless, the incumbent will have plenty of opportunities to become familiar with neurophysiological techniques, concepts and analysis. The combined expertise of our team, that includes electrophysiological recordings, brain coordination dynamics and psychology, plus the several activities in our institutions, offer an excellent environment for a motivated student of the brain and behaviour. We think that this is a very interesting and innovative project and thus we are seeking a person who is not afraid of facing advanced brain recording methods and analysis of the psychophysics of altered states of consciousness. Those interested should contact and submit a CV to Jose Luis Perez Velazquez, jlpv(a)sickkids.ca, or jose-luis.perez-velazquez(a)sickkids.ca. A couple of potential references may be added to the CV.

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*** ICCM 2015 – Call for Participation ***
by ICCM 2015 25 Feb '15

25 Feb '15

Dear all, We would like to invite you to the 13th International Conference on Cognitive Modeling: the premier conference for research on computational models and computation-based theories of human cognition. ICCM 2015 will take place from April 9-11 in Groningen, the Netherlands, with tutorials on April 8. We are pleased to announce three world-class invited speakers: Pieter Roelfsema (Netherlands Institute for Neuroscience), Mark Steyvers (University of California, Irvine), and John Anderson (Carnegie Mellon University). In addition to these keynotes, we will have three symposia, 27 research talks, and two poster sessions. A preliminary schedule is available on www.iccm2015.org/schedule, and registration is open. More information can be found on http://www.iccm2015.org. We hope to see you in Groningen! Niels Taatgen Marieke van Vugt Jelmer Borst Katja Mehlhorn

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Masterclass, rTMS and Neurofeedback training courses
by Martijn Arns 25 Feb '15

25 Feb '15

Masterclass Neuromodulation, Neurofeedback and rTMS View this email in your browser<http://us3.campaign-archive2.com/?u=3bac2a7f26a60f0ffa7edd46d&id=c068f6a6e8…> [https://gallery.mailchimp.com/3bac2a7f26a60f0ffa7edd46d/images/663f9d66-cd0…] * 2nd Masterclass Neuromodulation<http://brainclinics.us3.list-manage1.com/track/click?u=3bac2a7f26a60f0ffa7e…> * 4-day Neurofeedback Training<http://brainclinics.us3.list-manage2.com/track/click?u=3bac2a7f26a60f0ffa7e…> * 2-day rTMS course<http://brainclinics.us3.list-manage.com/track/click?u=3bac2a7f26a60f0ffa7ed…> Dear colleague, Due to a successful sold out Masterclass Neuromodulation and Personalized Medicine<http://brainclinics.us3.list-manage.com/track/click?u=3bac2a7f26a60f0ffa7ed…> last January, we have just planned a second edition of this Masterclass on September 25-26, 2015. So when interested in getting a full update on neuromodulation techniques such as rTMSand neurofeedback and imaging updates on QEEG, ERP's, Personalized medicine in ADHD and Depression and the default mode network: Sign-up now<http://brainclinics.us3.list-manage2.com/track/click?u=3bac2a7f26a60f0ffa7e…>, there are only a limited number of places! Furthermore, there are still some places for the upcoming 4-day Neurofeedback in ADHD and Insomnia training course on April 21-24 and 2-day rTMS in Depression and OCD training course on June 11-12, also see our website<http://brainclinics.us3.list-manage.com/track/click?u=3bac2a7f26a60f0ffa7ed…>. These courses are intended for academics, researchers and clinicians who want to learn to apply these techniques in clinical practice and research settings, or who want to further specialize in these techniques or disorders. Kind regards, Martijn Arns, PhD Twitter: @Brainclinics Research Institute Brainclinics Brainclinics Education URL: www.brainclinics.com<http://brainclinics.us3.list-manage.com/track/click?u=3bac2a7f26a60f0ffa7ed…> [https://gallery.mailchimp.com/3bac2a7f26a60f0ffa7edd46d/images/9014488f-a41…]

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