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Fruit Fly Brain Hackathon 2017

by Yiyin Zhou

Fruit Fly Brain Hackathon 2017 FFBH 2017 <http://www.bionet.ee.columbia.edu/hackathons/ffbh/2017>March 12, 2017Columbia University, New York, NY 10027 We are pleased to announce the 2nd Fruit Fly Brain Hackathon (FFBO 2017). This hackathon will feature the Fruit Fly Brain Observatory (FFBO) and its key components NeuroNLP and NeuroGFX. The former allows for exploring fruit fly brain data using plain English queries, and the latter facilitates the modeling and execution of such brain circuits. Brief tutorials will be given on the usage of the FFBO as well as developing new tools/features in FFBO. The hackathon is aimed at three main groups of participants: neurobiologists, modelers and software engineers. The goal of the hackathon is to bring together these three groups of participants to create new ideas to develop, use and improve the FFBO platform towards developing executable model of the fruit fly brain. The Fruit Fly Brain Hackathon is organized in conjunction with the Columbia Workshop on Brain Circuit, Memory and Computation on March 13-14, 2017. Participants of the hackathon are welcome to attend the workshop. Registration is free but all participants have to register <https://ffbo17.eventbrite.com/> (*https://ffbo17.eventbrite.com/ <https://ffbo17.eventbrite.com/>*). Organizers: Paul Richmond, Department of Computer Science, University of Sheffield Adam Tomkins, Department of Automatic Control and Systems Engineering, University of Sheffield Nikul Ukani, Department of Electrical Engineering, Columbia University Chung-Heng Yeh, Department of Electrical Engineering, Columbia University Yiyin Zhou, Department of Electrical Engineering, Columbia University More information can be found on the hackathon website: http://www.bionet.ee.columbia.edu/hackathons/ffbh/2017 ------------------------------------------------------------ ------------------ Best Regards, Yiyin Zhou, on behalf of the organizers

Jan. 19, 2017

Postdoc in Medical Data Science

by Philipp Berens

The lab of Philipp Berens (www.berenslab.org) at the Institute for Ophthalmic Research (www.eye-tuebingen.de) at the Eberhard-Karls-University Tübingen is offering a position as Postdoctoral Researcher in _Medical Data Science for Ophthalmology_ to be filled as soon as possible, with funding for up to 4 years. The successful candidate will perform research at the interface of data science and medicine with the goal to advance statistical methods for predicting disease onset or identifying risk factors by combining classical epidemiological approaches with recent developments in deep learning. The work will be done in close collaboration with the lab of Marius Ueffing and the ZEISS Vision Lab at the Institute for Ophthalmic Research and will contribute to a better understanding of ophthalmic diseases such as diabetic retinopathy or macular degeneration. The Berens lab conducts research in computational neuroscience, data science and biostatistics with a focus on developing tools to integrate various data sources. We have recently developed a framework based on deep neural networks for detecting diabetic retinopathy from fundus images modeling the decision uncertainty of the classifier (https://doi.org/10.1101/084210) Tübingen is home to a vibrant machine learning community with ample opportunity for interaction with researchers at both the University as well as the Max Planck Institute for Intelligent Systems. The Institute of Ophthalmic Research is part of the Center of Ophthalmology, covering various aspects of ophthalmic research from basic retinal neuroscience to the development of gene therapy and neuroprosthetics. We offer employment with a salary and social benefits based on the collective agreement for public service employees in the academic and science sector, TV-L. The Eberhard-Karls-University of Tübingen promotes gender equality and therefore particularly encourages female scientists to apply. Preferential status will be given to handicapped persons, if equally qualified. Requirements: • PhD in machine learning, statistics or related fields • Experience with medical data • Programming experience in Python and R • Strong publication record and scientific independence Interested applicants should contact Dr. Philipp Berens (philipp.berens(a)uni-tuebingen.de) providing a curriculum vitae, a one-page description of past research experience & future research interests, a one-page description of the motivation for applying to this position and names of at least two people that could provide letters of reference. Please compile your application in one single PDF-file and add [Data Science Postdoc] to the subject line. -- University of Tübingen Institute for Ophthalmic Research http://www.berenslab.org NEW PHONE NUMBER: +49-7071-2988833

Jan. 19, 2017

3 years funded PhD in oscillatory behaviour in Alzheimer’s disease to establish biomarkers, Deadline 31st of January

by Eirini Mavritsaki

Dear all, We are advertising a 3 year funded PhD project in "Investigating oscillatory behaviour in Alzheimer’s disease to establish biomarkers: an EEG and computational modelling programme of PhD study" Successful applicants for our funded PhD studentships will receive a tax-free research stipend that tracks UK Research Council rates (currently £14,296) and a fee waiver to the value of Home / EU student PhD fees (currently £4,120). Closing date for applications Tuesday 31 January 2017 at 23:59. This is a transdisciplinary STEAM Project This proposed PhD work follows high profile research by the University of Birmingham team (Prof. Kim Shapiro, Prof. Howard Bowman and Mr Ali Mazaheri). The project is collaborative work between Birmingham City University (Dr Eirini Mavritsak) and University of Birmingham (Prof. Kim Shapiro and Prof. Howard Bowman). The University of Birmingham team has access to ERP data of a semantic anomaly and word repetition task (Olichney et al, 2002). In the original analysis of the data Olichney and colleagues, the N400 component was analysed, which is related to semantic manipulation. Olichney and colleagues found evidence of N400 abnormalities in mild cognitive impairment patients, which predicted later progression to Alzhemier’s. We plan to simulate this data and the changes observed in this data by developing a computational model that is based on the sSoTS (Mavritsaki, Heinke, Humphreys and Deco, 2011) model. The synaptic currents that sSoTS contains will allow us to extract the ERP profile and simulate the above described experiment. In addition to that sSoTS model has already successfully simulated visual search outcomes for patients with Alzheimer’s (Mavritsaki and Humphreys, 2013). The project is separated into two phases: in phase 1, we plan to develop the computational model to simulate controls and mild cognitive impairment patients and in phase 2 we are planning to extend the model to allow us to predict the development of the disease based on identified biomarkers. The successful applicant will join the Centre for Applied Psychological Research (CAP Research) within the Department of Psychology at Birmingham City University. CAP Research is part of a vibrant and rapidly expanding research community, which offers applicants with an excellent opportunity to develop their research career. The applicant has the opportunity to have teaching experience, to participate in research seminars and to co-supervise undergraduate projects. The successful candidate will also be expected to attend the weekly meetings of the University of Birmingham research team. You can find further details on studying for a PhD and details of how to apply on the following link http://www.bcu.ac.uk/courses/social-sciences Candidate Qualification and Specifications: Essential Ø The applicant should hold a good undergraduate honours degree (First or 2:1) in psychology or related area. Ø The applicant should have experience of computational modelling, evidenced by previous work or masters degree. Ø A demonstrated understanding of research methods is essential (as evidenced by degree transcript grades for research methods and dissertation modules). Ø Experience in C++ and Matlab. Desirable Ø A Masters’ degree in research methods, psychology or computational modelling Ø Experience in EEG analysis Contact: Eirini Mavritsaki, Ph.D., CPsychol Email: eirini.mavritsaki(a)bcu.ac.uk<mailto:eirini.mavritsaki@bcu.ac.uk> Best regards, Eirini Mavritsaki ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Eirini Mavritsaki, PhD, CPsychol Senior Lecturer in Cognitive Psychology Director of Research in the School of Social Sciences Department of Psychology Faculty of Business Law and Social Sciences Birmingham City University The Curzon Building 4 Cardigan Street Birmingham B4 7BD eirini.mavritsaki(a)bcu.ac.uk<mailto:eirini.mavritsaki@bcu.ac.uk> 0121 331 6361 Special Issue in Frontiers 'Neuropsychology through the lenses of computational modelling' http://fron.tiers.in/go/r2e3M4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Jan. 19, 2017

Postdoctoral fellowship in computational neuroscience at Harvard

by Jan Drugowitsch

Dear all, Jan Drugowitsch (Department of Neurobiology, Harvard) and Sam Gershman (Department of Psychology, Harvard) are seeking a postdoctoral fellow to work on a project combining computational modeling, psychophysics, and clinical studies. The project focuses on the neural basis of visual structure discovery, using motion perception as a model system. Our goal is to understand how neural circuits represent and reason about complex combinatorial structures, and how these neural circuits break down in autism. The postdoctoral fellow's main focus is the computational modeling component of the project. The Drugowitsch and Gershman labs are located in the Longwood medical area and Harvard’s Cambridge campus, respectively. Harvard, and the Boston area in general, has an excellent neuroscience community and programs in engineering, statistics, and related fields. Candidates must have a Ph.D. in a quantitative discipline and strong background in Bayesian modeling and computational neuroscience. Experience with visual psychophysics experiments is desirable but not essential. Applicants should send a CV and statement of research interests to Jan Drugowitsch (Jan_Drugowitsch(a)hms.harvard.edu) The initial appointment is for one year with the expectation of extension given satisfactory performance. Applications will be reviewed until the position is filled. Jan Drugowitsch will be attending the the Computational and Systems Neuroscience meeting on February 23-28 to interview potential candidates. Best regards, Jan Drugowitsch Assistant Professor in Neurobiology Harvard Medical School

Jan. 18, 2017

Excellence workshop ''Dynamical Network States, Criticality and Cortical Function'' (March 25-28, 2017 in Germany)

by David Rotermund

We would like to invite you to participate in our excellence workshop “Dynamical Network States, Criticality and Cortical Function”. It will take place March 25-28, 2017 at the Hanse-Wissenschaftskolleg in Delmenhorst (near Bremen, Germany). Please feel free to forward the following information to anyone who you think may be interested in attending our workshop. Confirmed Speakers John Beggs, Matthias Bethge, Stefan Bornholdt, Mauro Copelli, Lucilla de Arcangelis, Thilo Gross, Michael Herrmann, Anna Levina, Klaus Linkenkaer-Hansen, Paolo Massobrio, Ruben Moreno-Bote, Eilif Benjamin Müller, Dietmar Plenz, Viola Priesemann, Silvia Scarpetta, Woodrow Shew, Oren Shriki, Thilo Womelsdorf. Workshop description ==================== Current information on the workshop can be found on the website http://www.h-w-k.de/index.php?id=2240 Soon we will update this web-page with the program . Cortical information processing relies heavily on the collective dynamics of neurons and networks distributed over many brain areas. A key concept for understanding this process is the idea that networks operate near a critical state, which offers several potential benefits for computation and information processing. However, there is still a large gap between research on criticality and understanding brain function: For example, * biological cortical networks are not homogeneous but highly structured, * they are not in a state of spontaneous activation but strongly driven by changing external stimuli, and * they process information with respect to a concrete behavioral goal. Moreover, critical states are just one side of the medal, since there are other concepts of how collective dynamics enables, shapes, and controls information processing; i.e. actively provide an operating point for cortical computation: To name just a few, there are * balance between excitation and inhibition, * temporal coordination and multiplexing, and * task-dependent computation and signal routing (selective attention). Understanding cortical function will only be possible by putting these conceptual ideas into a unifying framework and critically test them against experimental evidence. In this workshop we will bring together experts representing different approaches for understanding the collective dynamics of cortical networks and their implications for information processing. Hereby we will focus on work with a concrete link to cortical physiology, structure or dynamics observed in experiments. Our goals are to establish novel links between communities, concepts and methods and to identify key problems that have to be addressed by future theoretical and experimental work. Registration ============ The general costs of the workshop will be subsidized by the 'Hanse-Wissenschaftskolleg Institute for Advanced Study' (www.h-w-k.de) and by the BMBF (Bernstein Award Udo Ernst). However, in order to cover all costs, we ask for a registration fee in the amount of € 50,00 for PhD students and € 100,00 for postdocs/professors. Unfortunately, we cannot cover your costs for accommodation and travelling. Participation in the workshop will be limited to about 60 attendees (20 main speakers, 40 postdocs + PhD students). In case you are interested in participating, we would ask you to send your reply to Agnes Janssen ajanssen(a)neuro.uni-bremen.de. We can also arrange hotel reservations for you. Poster session ============== Besides the talks of the main speakers and plenty of time for discussions, there will be a poster session. You are invited to present a poster, in which case please send the title and abstract to Agnes Janssen. Again, we would greatly appreciate having you at our workshop. If you have any questions, please do not hesitate to contact us. Yours sincerely Udo Ernst and Nergis Tömen

Jan. 18, 2017

Post-Doc position at UCL Ear Institute: How the brain detects patterns in sound sequences

by Marcus Pearce

Dear All (with apologies for cross-posting), *A postdoctoral research associate position*is available at the UCL Ear Institute’s ‘Auditory Cognitive Neuroscience Lab’ to work on a project entitled "How the brain detects patterns in sound sequences". The project will be supervised by Dr Maria Chait and conducted in collaboration with Dr. Marcus Pearce (Queen Mary University, London) and colleagues at the UCL Wellcome Trust centre for neuroimaging. The post is funded for 34 months in the first instance and involves a combination of behavioural, computational, eye tracking, and functional brain imaging (EEG, MEG, fMRI) experiments in humans. For more information about the post please see the lab website: *http://www.ucl.ac.uk/ear/research/chaitlab/vacancies* The Ear Institute is a leading interdisciplinary centre for hearing research in Europe, situated within one of the strongest neuroscience communities in the world at University College London *Key Requirements* The successful applicant will have a PhD in neuroscience or a neuroscience-related discipline and proven ability to conduct high-quality original research and prepare results for publication. Essential skills include excellent time-management and organizational ability; proficiency in computer programming and good interpersonal, oral and written communication skills. Previous experience with functional brain imaging, neural data analysis, psychophysical assessment, and/or auditory science or acoustics would be desirable. *Further Details* You should apply for this post (Ref #: 1618836) through UCL's online recruitment website, www.ucl.ac.uk/hr/jobs <http://www.ucl.ac.uk/hr/jobs>, where you can download a job description and person specifications. *Closing Date for applications is: *1 Feb 2017 *For an informal discussion please contact Dr. Maria Chait (m.chait(a)ucl.ac.uk).* Maria Chait PhD m.chait(a)ucl.ac.uk <mailto:m.chait@ucl.ac.uk> Reader in Auditory Cognitive Neuroscience Lab site: http://www.ucl.ac.uk/ear/research/chaitlab/ UCL Ear Institute 332 Gray's Inn Road London WC1X 8EE

Jan. 18, 2017

Faculty position in Computational Neuroscience - open rank

by Jorn Diedrichsen

Western University (Ontario, Canada) is inviting applications from exceptional investigators at all career levels for a probationary (tenure-track) position at the rank of Assistant or Associate or a tenured faculty position at the rank of Associate or Professor in Computational Neuroscience. This appointment is in association with BrainsCAN (http://www.uwo.ca/brainscan) a $66M initiative funded by the Canada First Research Excellence Fund at Western University, and will be the first of two new positions in this area. For further particulars, please see: http://www.uwo.ca/bmi/media/CompNeuroScienceJan2017.pdf Jörn Diedrichsen Western Research Chair Brain Mind Institute Department of Computer Science Department of Statistics Email: jdiedric(a)uwo.ca<mailto:jdiedric@uwo.ca> Tel: 1-519-661-2111 x86994

Jan. 18, 2017

Funded PhD/postdoc position "Neural basis for motivation and perseverence in behavior"

by Gjorgjieva, Julijana

A funded PhD position "Neural basis for motivation and perseverence in behavior” is available in the group of Julijana Gjorgjieva, Max Planck Institute for Brain Research (Frankfurt, Germany) and the Technical University of Munich (Munich, Germany). We will also consider strong postdoctoral applicants. Recommended application deadline: February 15, 2017. Applicants will be considered until the position is filled. The project is a collaboration with the experimental lab of Ilona Grunwald Kadow (Technical University of Munich) who studies the neural circuits underlying sensory processing and decision making in Drosophila. We are two young and highly-driven labs with many interesting ideas and synergistic interactions. Have you ever wondered how you came to like the taste of coffee? If you don’t like blue cheese, would you still consider eating some if you were very hungry? We want to understand how behavior changes in response to different sensory experiences and how they are imprinted as memories. The project aims to uncover circuit principles and behavioral readouts of motivation and persistence in the presence of diverse stimuli of different valences (appetitive of aversive) and as a function of internal state (e.g. hunger). To achieve this, we use a combination of theory, computational modeling and cutting-edge experiments. Applicants should have strong quantitative background (in mathematics, physics, engineering, computer science, or related fields), some experience in programming and data analysis, and a desire to develop cutting-edge experimental techniques. Previous background in behavioral analysis is a plus! The position offers the possibility to live in two of the most exciting cities in Germany and Europe. It will be based at the Max Planck Institute for Brain Research in Frankfurt, with frequent visits to the Technical University of Munich in Munich. The position also offers the possibility of behavioral analysis and in vivo multiphoton imaging experiments to be performed in the collaborating Grunwald Kadow lab: http://www.neuro.wzw.tum.de To apply, please email the following: 1. A curriculum vitae 2. A motivation letter (if a PhD student) or a description of research interests (if a postdoc). Please explain your scientific interests, what are you strengths when working on a problem, why us? 3. Contact details for 2-3 referees 4. A written sample of scientific research, e.g. a manuscript, thesis, or code Please feel free to contact us with informal enquiries: gjorgjieva(a)brain.mpg.de http://www.cns.wzw.tum.de ----------------------------------------- Julijana Gjorgjieva, PhD Research Group Leader Max Planck Institute for Brain Research Max-von-Laue-Str. 4, Frankfurt Assistant Professor of Computational Neuroscience Technical University of Munich, WZW Freising office: +49 69 850033 3600 http://cns.wzw.tum.de

Jan. 17, 2017

Post-doc position in Computational Neuroscience available at University of Sussex

by Thomas Nowotny

Dear all, A post-doc position in Computational Neuroscience is available at the University of Sussex for 20 months to be filled as soon as possible. You will be joining the Odor Objects project (http://www.odor-objects.org/) in which we are investigating how animals interpret the complex odor plumes of chemicals in the air to identify sources of odors and distinguish them. Odor Objects is supported by the Human Frontiers Science Program (www.hfsp.org/<http://www.hfsp.org/>) and combines 4 international groups in Konstanz, Germany (physiology), Tempe, Arizona (behavior), Tokyo, Japan (robotics) and Brighton, UK (computational models). If you are joining us at Sussex your work will involve computational modelling of brain networks and data analysis of related data from the experimental partners. Models will then be used to design bio-mimetic controllers which will be tested by our partners in Japan. We are looking for a talented post-doc with an interest in computational work. Applicants from all science disciplines are welcome but essential skills are the ability to program, mathematical skills, e.g. to be able to apply dynamical systems analysis, and creative scientific thinking. The bulk of the work will be carried out on the beautiful Falmer campus of the University of Sussex at the outskirts of the lively South Coast town of Brighton. As part of the project you will travel to the project partners worldwide. There are many opportunities for further interactions at Sussex beyond the project, e.g. with the Brains on Board project (BrainsOnBoard<http://gow.epsrc.ac.uk/NGBOViewGrant.aspx?GrantRef=EP/P006094/1)>), and a wide variety of Neuroscience research in Sussex Neuroscience (www.sussex.ac.uk/sussexneuroscience/<http://www.sussex.ac.uk/sussexneuroscience/>). For more details and to apply, please go to http://www.sussex.ac.uk/aboutus/jobs/1626 . There is an initial closing date of 1 February 2017 but we will continue searching until the position is filled. Best regards, Thomas -- Prof Thomas Nowotny Director of Research and Knowledge Exchange School of Engineering and Informatics University of Sussex Falmer, Brighton BN1 9QJ, UK Phone: +441273678593 FAX: +441273877873

Jan. 17, 2017

3-year fully-funded PhD in motor learning and control

by Joseph Galea (School of Psychology) (ID=*****11)

Dear all, The Galea lab (josephgalea.weebly.com<http://josephgalea.weebly.com/>) in the School of Psychology at the University of Birmingham (UK) has a fully-funded (for UK/EU nationals) 3-year PhD position beginning October, 2017 funded by the ERC starting grant: MotMotLearn. Motor learning (the ability of the brain to learn and update how an action is executed) is a fundamental process which influences many aspects of our lives such as learning to walk during childhood; the day-to-day behavioural adjustments required as an adult or in healthy ageing; and the rehabilitation process following an illness or injury. Despite the impact to society, it has proved extremely difficult to develop interventions that significantly enhance human motor learning. Therefore, devising protocols which optimise motor learning is a state-of-the-art research question that promises to deliver scientific, clinical and societal impact. Seeking reward and avoiding punishment are powerful factors in motivating humans to alter behaviour during cognition-based learning (selecting which action to perform), with sensitivity to reward and punishment being biased by the availability of dopamine in the brain. Intriguingly, reward and punishment are also known to affect generic motor learning (deciding how an action is executed) tasks which involve multiple underlying mechanisms. However to establish their potential for optimizing motor learning, we must understand how explicit reward- and punishment-based motivational feedback impact motor learning systems with unique computational and anatomical features. Using a combination of behavioural analysis, computational modelling, genetics and brain imaging, this PhD project will contribute to the first systems-based account of how reward, punishment and dopamine influence motor learning. Specifically, the successful candidate will investigate how motor memories are consolidated across multiple days and the influence reward has on this process. It will further examine whether memory retention can be enhanced through reward-based implicit cues and if this process can be captured with EEG. Dr Galea is seeking an intelligent and enthusiastic student with experience either in motor control/learning, computational neuroscience and/or EEG. The ideal candidate will have experience with programming in matlab, collecting data (from participants) on behavioural tasks and some understanding of statistics. A masters and/or research assistant experience would be ideal but not compulsory. Psychology at the University of Birmingham www.birmingham.ac.uk/schools/psychology/research/index.aspx<http://www.birmingham.ac.uk/schools/psychology/research/index.aspx> If interested please email your CV to: j.galea(a)bham.ac.uk<mailto:j.galea@bham.ac.uk>

Jan. 17, 2017