- Comp-neuro - lists.cnsorg.org

Fruit Fly Brain Hackathon 2019

by Yiyin Zhou

Fruit Fly Brain Hackathon 2019 FFBH 2019 <http://fruitflybrain.org/hackathons>March 20, 2019Columbia University, New York, NY 10027 The 4th Fruit Fly brain Hackathon (FFBH 2019) will be held on Wednesday, March 20, 2019. The goal of the hackathon is to bring together researchers interested in developing executable models of the fruit fly brain. In this year’s hackathon, we will focus on the FlyBrainLab <http://www.bionet.ee.columbia.edu/research/ffbo/fbl> (FBL), a newly developed interactive computing platform for studying the function of executable circuits constructed from fly brain data. The hackathon is aimed at three main groups of participants: neurobiologists, modelers and software engineers. We welcome researchers working on the fruit fly brain as well as those working on other model organisms to participate and broaden the discussion in the hackathon. The Fruit Fly Brain Hackathon 2019 is organized in conjunction with the Columbia Workshop on Brain Circuit, Memory and Computation <http://fruitflybrain.org/workshops.html> on March 21-22, 2019. Participants of the hackathon are welcome to attend the workshop. Registration is free but all participants have to register <https://ffbh2019.eventbrite.com/>. (*https://ffbh2019.eventbrite.com/ <https://ffbh2019.eventbrite.com/>*). Organizers: Tingkai Liu, Department of Electrical Engineering, Columbia University Mehmet Kerem Turkcan, 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://fruitflybrain.org/hackathons ------------------------------------------------------------------------------ Best Regards, Yiyin Zhou, on behalf of the organizers -- Yiyin Zhou Associate Research Scientist Bionet Group: www.bionet.ee.columbia.edu Department of Electrical Engineering Columbia University

March 4, 2019

12ᵗʰ Advanced Scientific Programming in Python in Camerino, Italy, 2—7 September, 2019

by Jakob Jordan

12ᵗʰ Advanced Scientific Programming in Python ============================================== a Summer School by the G-Node and the University of Camerino https://python.g-node.org Scientists spend more and more time writing, maintaining, and debugging software. While techniques for doing this efficiently have evolved, only few scientists have been trained to use them. As a result, instead of doing their research, they spend far too much time writing deficient code and reinventing the wheel. In this course we will present a selection of advanced programming techniques and best practices which are standard in the industry, but especially tailored to the needs of a programming scientist. Lectures are devised to be interactive and to give the students enough time to acquire direct hands-on experience with the materials. Students will work in pairs throughout the school and will team up to practice the newly learned skills in a real programming project — an entertaining computer game. We use the Python programming language for the entire course. Python works as a simple programming language for beginners, but more importantly, it also works great in scientific simulations and data analysis. We show how clean language design, ease of extensibility, and the great wealth of open source libraries for scientific computing and data visualization are driving Python to become a standard tool for the programming scientist. This school is targeted at Master or PhD students and Post-docs from all areas of science. Competence in Python or in another language such as Java, C/C++, MATLAB, or R is absolutely required. Basic knowledge of Python and of a version control system such as git, subversion, mercurial, or bazaar is assumed. Participants without any prior experience with Python and/or git should work through the proposed introductory material before the course. We are striving hard to get a pool of students which is international and gender-balanced. Date & Location =============== 2–7 September, 2019. Camerino, Italy. Application =========== You can apply online: https://python.g-node.org/wiki/applications Application deadline: 23:59 UTC, 26 May, 2019. There will be no deadline extension, so be sure to apply on time. Be sure to read the FAQ before applying: https://python.g-node.org/wiki/faq Participation is for free, i.e. no fee is charged! Participants however should take care of travel, living, and accommodation expenses by themselves. Program ======= • Version control with git and how to contribute to open source projects with GitHub • Tidy data analysis and visualization • Testing and debugging scientific code • Advanced NumPy • Organizing, documenting, and distributing scientific code • Advanced scientific Python: context managers and generators • Writing parallel applications in Python • Profiling and speeding up scientific code with Cython and numba • Programming in teams Faculty ======= • Caterina Buizza, Personal Robotics Lab, Imperial College London, UK • Jenni Rinker, Department of Wind Energy, Technical University of Denmark, Roskilde, Denmark • Juan Nunez-Iglesias, Bioimage Analysis Research Fellow, Monash University, Australia • Nelle Varoquaux, Department of Statistics, UC Berkeley, CA, USA • Pamela Hathway, Neural Reckoning, Imperial College London, UK • Pietro Berkes, NAGRA Kudelski, Lausanne, Switzerland • Rike-Benjamin Schuppner, Institute for Theoretical Biology, Humboldt-Universität zu Berlin, Germany • Stéfan van der Walt, Berkeley Institute for Data Science, UC Berkeley, CA, USA • Tiziano Zito, Department of Psychology, Humboldt-Universität zu Berlin, Germany Organizers ========== For the German Neuroinformatics Node of the INCF (G-Node), Germany: • Tiziano Zito, Department of Psychology, Humboldt-Universität zu Berlin, Germany • Caterina Buizza, Personal Robotics Lab, Imperial College London, UK • Zbigniew Jędrzejewski-Szmek, Red Hat Inc., Warsaw, Poland • Jakob Jordan, Department of Physiology, University of Bern, Switzerland For the University of Camerino, Italy: • Barbara Re, Computer Science Division, School of Science and Technology, University of Camerino Italy Website: https://python.g-node.org Contact: python-info(a)g-node.org

March 4, 2019

Final Program of the Columbia Workshop on Brain Circuits, Memory and Computation, March 21-22, 2019

by Aurel A. Lazar

http://fruitflybrain.org/workshops.html Aurel http://www.bionet.ee.columbia.edu

March 3, 2019

Discovering dynamic functional networks in the human neonatal brain with electric source imaging

by Steve Mehrkanoon

Dear Colleagues, We announce new findings in the human brain dynamics: Title: Discovering dynamic functional networks in the human neonatal brain with electric source imaging <http://biorxiv.org/cgi/content/short/545616v1?rss=1> https://www.biorxiv.org/content/10.1101/545616v1?rss=1 Kind regards Steve Dr Steve Mehrkanoon Senior Mathematical Neuroscientist, The University of Queensland Advance Queensland Research Fellow, Home: http://researchers.uq.edu.au/researcher/14135 [UQEmailBannerGeneric]

March 2, 2019

EXTENSION: CNS*2019 Call for Abstracts

by Sharon Crook

The abstract submission deadline for CNS*2019 has been extended to Monday March 11, 2019, 11:00 pm Pacific Time. Please remember to renew your OCNS membership and register for the meeting prior to abstract submission. CNS*2019 Call for Abstracts Organization for Computational Neurosciences (OCNS) 28th Annual Meeting Barcelona, Catalonia, Spain July 13-17, 2019 Local Organizers: Alex Roxin, Klaus Wimmer, Albert Compte, Jaime de la Rocha, Gemma Huguet Ramon The main meeting begins the evening of Saturday July 13 and runs through Tuesday July 16. It will be preceded by a day of tutorials (Saturday July 13) and followed by workshops (Tuesday July 16 mixed with the main meeting and Wednesday July 17 workshops only). Invited Keynote Speakers: Ed Bullmore, University of Cambridge Kenji Doya, Okinawa Institute for Science and Technology Mavi Sanchez-Vives, Universitat de Barcelona Ila Fiete, University of Texas Note that one of the authors must register as sponsoring author for the main meeting before abstract submission. In case the abstract is not accepted for presentation, the registration fee will be refunded. Submitted abstracts are used for creating the program and for publication. Please follow the formatting guidelines on the submission site. Travel awards are available for student and postdoc members of OCNS. Please apply using the checkbox on the abstract submission form and note that an extended abstract is required when applying for a travel award or oral presentation format. Registration: https://ocns.memberclicks.net/index.php?option=com_mc&view=mc&mcid=form_259… Abstract Submission: https://www.cnsorg.org/cns-2019-abstract-submission For up-to-date conference information, please visit: https://www.cnsorg.org/cns-2019-quick -------------------------------------------------------------------------------------------------------------------------------- OCNS is the international member-based society for computational neuroscientists. Become a member to be eligible for travel awards and more. Visit our website for more information: http://www.cnsorg.org

March 1, 2019

Postdoctoral position in cortical circuit modelling (Krembil Centre for Neuroinformatics)

by Etay Hay

Postdoctoral position in cortical circuit modelling (Krembil Centre for Neuroinformatics) Hay lab, at Krembil Centre for Neuroinformatics and the University of Toronto, is currently accepting applications for a postdoctoral position in using computational models to study the effects of cellular mechanisms on cortical circuit activity and brain recordings, in health and disease. We will simulate biophysical models of cortical circuits, constrained with data from rodents and humans, to study the effect of synaptic connectivity and dendritic ion channels on cortical circuit activity and processing. In turn, we will characterize the predicted signatures of the effects in measurable signals of cortical circuit activity, which will include the spatio-temporal propagation of neuronal spiking activity, LFP in different cortical layers, and EEG. The position will be up to 3 years, renewed yearly. Applicants should have strong and relevant peer-reviewed publications, particularly modelling studies of spiking neuronal networks (conductance-based or integrate-and-fire), and experience in using NEURON and Matlab. Hay lab is located at Krembil Centre for Neuroinformatics (KCNI), which is part of the Centre for Addiction and Mental Health (CAMH). The centre is fully affiliated with the University of Toronto, and is situated at the downtown campus. Neuroscience research at KCNI offers a unique environment that is both specialized and collaborative, spanning computational genomics, brain circuits, whole-brain networks, and behavior. Interested applicants should send their CV to Dr. Etay Hay, at: etay.hay(a)camh.ca Etay Hay, PhD Independent Scientist, Krembil Centre for Neuroinformatics, CAMH Assistant Professor, Department of Psychiatry, University of Toronto www.haybrainlab.com CONFIDENTIALITY NOTICE: This e-mail message, including any attachments, is for the sole use of the intended recipient(s) and may contain confidential and privileged information. Any unauthorized review, use, disclosure or distribution is prohibited. If you are not the intended recipient, please contact the sender by reply e-mail and destroy all copies of the original message. AVIS DE CONFIDENTIALITÉ : Ce message électronique, ainsi que tout fichier qui y est joint, est reserve à l'usage exclusif du destinataire visé et peut contenir des renseignements confidentiels et privilégiés. Toute lecture, utilisation, divulgation ou distribution non autorisée est interdite. Si vous n'êtes pas le destinataire visé, veuillez en aviser l'expéditeur par retour de courriel et détruire toutes les copies du message original.

March 1, 2019

Postdoctoral positions in computational neuroscience

by Maxim Bazhenov

Applications are invited for post-doctoral research position in the laboratory of Dr. Maxim Bazhenov at the University of California, San Diego to study cellular and circuit level mechanisms behind large-scale brain electrical activity. This project involves close collaboration with experimental laboratories. The ultimate goal of the work is to develop detailed multi-scale models of how human MEG and EEG are generated, including channels, synapses, neurons, and networks. Specific focus of the project is on sleep rhythms. The successful candidate will be responsible for the design of the anatomically realistic brain network models based on experimental data. These models will be used to understand network dynamics behind MEG and EEG rhythms. This project will be developed in close interaction with other projects in the lab focusing on understanding the role of sleep in memory and learning and deriving novel learning principles that can be applied in artificial intelligence and machine learning. Qualified applicants are expected to have experience in computational/theoretical neuroscience and neural modeling. Programming experience in C/C++/ PYTHON/MATLAB is required. The University of California offers excellent benefits. Salary is based on research experience. Applicants should send a brief statement of research interests, a CV and the names of three references to Maxim Bazhenov at mbazhenov(a)ucsd.edu (I will be at Cosyne workshops on March 3-5, and I would be glad to meet with interested candidates) -- Maxim Bazhenov, Ph.D. Professor, Department of Medicine, Neurosciences Graduate Program, UCSD, School of Medicine http://www.bazhlab.ucsd.edu/

March 1, 2019

PhD fellowships in Neuroscience at Unipd

by Samir Suweis

The Padova Neuroscience Center (http://pnc.unipd.it/ <http://pnc.unipd.it/admission/>) is delighted to announce its second call for at least 10 fully funded PhD fellowships in Neuroscience at the University of Padova. The multidisciplinary PhD program includes research lines and methods from Imaging, Cellular, Cognitive, Translational and Computational Neuroscience. The time-frame for the application is 8th of April-10th of May 2019 (at 1 pm). The details for the application will be published on the 8th of April at: http://pnc.unipd.it/admission/ <http://pnc.unipd.it/admission/>. Stay tuned! Interested candidate can also contact me suweis(a)pd.infn.it <mailto:suweis@pd.infn.it> for further information. Please forward this message to collaborators and students. Thanks **** Padova University is one of the oldest and most prestigious universities in Europe - established in 1222. The University of Padova invests significantly in research activities and projects. Padova, is a small and beautiful town, shaped around the University. Low living costs, great food, and you can bike everywhere! Samir Suweis, Ph.D. https://impactstory.org/u/SamirSuweis <https://impactstory.org/u/SamirSuweis> @SamirSuweis Research Scientist (RTDa) LIPh Lab, Physics Department, University of Padova Tel: +39 049 827 71 74 www.pd.infn.it/~maritan/people/Samir/samir.html

March 1, 2019

Workshop: Structure and disorder: From random connections to functional circuits, July 10-12 2019, Göttingen

by Rainer Engelken

Dear Colleagues, We are pleased to draw your attention to the fourth edition of the workshop on advanced methods in theoretical neuroscience. The programme is intended for the exchange of new approaches and methods, and presentations that will spark new ideas for future developments. Please see the details below or at https://www.neuro-theory.org/ Best regards, Viola Priesemann, Rainer Engelken, Farzad Farkhooi and Jonathan Kadmon *Structure and disorder: From random connections to functional circuits* July 10-12, 2019, Göttingen (Tutorials: July 9th) https://www.neuro-theory.org/ This workshop will focus on the inherent difficulties of studying the underlying dynamics that guide the synaptic organization in neuronal circuits. The forum is intended for researchers to not only share results but also survey and discuss recent advances in methods and to pinpoint limitations of the existing theoretical tools. These exchanges will be complemented by poster presentations from students and postdocs. A day of tutorial sessions will be held prior to the main meeting, covering some of the background and methods discussed in the workshop. ** Confirmed speakers ** Yashar Ahmadian (Oregon) Nicolas Brunel (Duke) Carson C Chow (NIH) Carina Curto (Penn State) Julijana Gjorgjieva (MPI Brain, Frankfurt) Valerio Mante (University of Zurich) Francesca Mastrogiuseppe (UCL-Gatsby Unit) Raoul Martin Memmesheimer (Universität Bonn) Andreas Neef (Göttingen) Cengiz Pehlevan (Harvard) Kanaka Rajan (Mount Sinai) Maria V. Sanchez-Vives (Barcelona) Silvia Scarpetta (Salerno) Elad Schneidman (Weizmann Institute) Jordi Soriano (Barcelona) Tali Tishbi (Hebrew University) ** Registration ** Accepting application through April 30. Space is limited. Preference will be given to presenting authors (posters) and by order of application so early registration is encouraged. A small fee of 50 Euro (+ 20 Euros for tutorials) will be collected upon confirmation. Apply now <https://goo.gl/forms/JEJWuWO1wnutYwJh1> ** Tutorials ** The tutorials will be held prior to the main meeting on July 9, 2019. The tutorials aim to introduce some mathematical techniques relevant to the workshop talks. ** Poster submission/short talks ** Poster submissions are highly encouraged. Presenting authors will receive higher priority for acceptance. Some abstracts may be selected for short or full talks in the workshop. Organizers: Viola Priesemann (MPI for Dynamics and Self-Organization, Goettingen) Rainer Engelken (Columbia University) Farzad Farkhooi (Technische Universität Berlin) Jonathan Kadmon (Stanford University) -- ************************************************************* Rainer Engelken Mortimer B. Zuckerman Mind Brain Behavior Institute Columbia University m: 9178648856 pgp fingerprint: F94E 83D9 77AB 76F6 15E9 1503 3AD6 FCDC 410B 14F2 re2365(a)columbia.edu ctn.zuckermaninstitute.columbia.edu *************************************************************

March 1, 2019

Kosice Neuroscience Workshop, 3 - 5 June, 2019

by Norbert Kopco

SAVE THE DATE! The 4th Workshop on */"Cognitive neuroscience of auditory and cross-modal perception"/* 3 - 5 June 2019 Kosice, Slovakia http://pcl.upjs.sk/workshop2019 *Objectives* ·This workshop will include research talks (and introductory lectures) on a range of topics related to the *neural processes of auditory, visual and cross-modal perception*. ·The main focus of this year’s workshop will be on *adaptation, learning and training in spatial perception and cognition*. ·The talks will illustrate the *multidisciplinary character of cognitive neuroscience research*, covering behavioral, neuroimaging, and modeling approaches, as well as applications of the research in auditory prosthetic devices. ·The workshop targets *early-stage and advanced students and young researchers*. It will provide ample opportunities for direct interactions between the lecturers and the attendees. The workshop will follow-up on our previous workshops organized in 2014, 2015 and 2017 <http://pcl.upjs.sk/workshop>. *Format* 1/2-day sessions, including invited talks, contributed talks, and posters, focusing on the topics of *Adaptation*,*Learning and training*, *Auditory and cross-modal perception (general)*, and *Vision and other topics in computational and cognitive neuroscience*. Non-scientific program (outings to tourist destinations near Kosice) will take place on the day before and day after the workshop. *Venue* Lecture hall 2.17T,Faculty of Science / Technicom building, P. J. Šafárik University, Jesenná 5, 04001 Košice Slovakia <https://goo.gl/maps/6m3GC3iJNeA2>. *Organizers* Norbert Kopco, P. J. Safarik University in Košice <https://pcl.upjs.sk/noro/> Erick Gallun, National Center for Rehabilitative Auditory Research, Portland and OHSU <http://www.ncrar.research.va.gov/AboutUs/Staff/gallun.asp>Piotr Majdak, Austrian Academy of Science, Vienna <https://www.kfs.oeaw.ac.at/index.php?option=com_content&view=article&id=56:…> Aaron Seitz, University of California, Riverside <http://faculty.ucr.edu/%7Easeitz/> Invited talks and talks by ALT consortium (tentative): * *Jana Basnakova*, Slovak Academy of Sciences <https://www.sav.sk/?lang=sk&doc=user-org-user&user_no=5398&lang_change=en> ** * *Virginia Best <http://cns.bu.edu/~ginbest/>*, Boston University <http://cns.bu.edu/~ginbest/> * *Lauren Calandruccio, <http://caslabs.case.edu/sparlab/>*Case Western Reserve University, Ohio <http://caslabs.case.edu/sparlab/> * *John Culling, <http://cullinglab.org/>*Cardiff University <http://cullinglab.org/> * *Inyong Choi, <https://clas.uiowa.edu/comsci/people/inyong-choi>*The University of IOWA – “Adapting to simultaneous electric and acoustic stimulation for word-in-noise recognition in listeners with single-sided deafness.” <https://clas.uiowa.edu/comsci/people/inyong-choi> * *Erick Gallun <http://www.ncrar.research.va.gov/AboutUs/Staff/gallun.asp>*, National Center for Rehabilitative Auditory Research, Portland and OHSU <http://www.ncrar.research.va.gov/AboutUs/Staff/gallun.asp> * *Catarina Hiipakka, <https://www.aalto.fi/people/catarina-macedo-mendonca-hiipakka>* Alto University, Finland – “Changes in auditory space following audiovisual experience.” <https://www.aalto.fi/people/catarina-macedo-mendonca-hiipakka> * *Andrej Kral, <http://neuroprostheses.com/>*Hannover Medical School, Germany <http://neuroprostheses.com/> * *Norbert Kopco, <https://pcl.upjs.sk/noro/>*Safarik University, Slovakia <https://pcl.upjs.sk/noro/> * *Bernhard Laback <https://www.kfs.oeaw.ac.at/index.php?option=com_content&view=article&id=54&…>*, Austrian Academy of Sciences <https://www.kfs.oeaw.ac.at/index.php?option=com_content&view=article&id=54&…> * *Petr Marsalek <http://www.karlin.mff.cuni.cz/~marsalek/>*, Charles University of Prague and Max Planck Institute for the Physics of Complex Systems <http://www.karlin.mff.cuni.cz/~marsalek/> * *Piotr Majdak <https://www.kfs.oeaw.ac.at/index.php?option=com_content&view=article&id=56:…>*, Austrian Academy of Sciences <https://www.kfs.oeaw.ac.at/index.php?option=com_content&view=article&id=56:…> * *John van Opstal, <https://www.ru.nl/english/people/opstal-a-van/>*Radbound University, Netherlands – “Perceived Target Range Shapes Human Sound-Localisation Behaviour” <https://www.ru.nl/english/people/opstal-a-van/> * *Josefa Oberem, <http://www.akustik.rwth-aachen.de/cms/Technische-Akustik/Das-Institut/Team/…>*RWTH Aachen University, – “Individual dynamic binaural reproduction in complex acoustic scenes: Understanding mechanisms in auditory attention.” <http://www.akustik.rwth-aachen.de/cms/Technische-Akustik/Das-Institut/Team/…> * *Chris Stecker, <http://spacelab.spatialhearing.org/>*Vanderbilt University Medical Center <http://spacelab.spatialhearing.org/> * *Dan Sanes, <http://www.cns.nyu.edu/corefaculty/Sanes.php>*New York University <http://www.cns.nyu.edu/corefaculty/Sanes.php> * *Nelli Salminen, <https://people.aalto.fi/nelli.salminen>*Alto University, Finland <https://people.aalto.fi/nelli.salminen> * *Aaron Seitz <http://faculty.ucr.edu/~aseitz/>*, University of California, Riverside <http://faculty.ucr.edu/~aseitz/> * *Filip Smolik, *Czech Academy of Sciences <http://www.psu.cas.cz/people-contacts/cv/smolik/index.html> * *Brigitta Toth, <http://www.ttk.mta.hu/en/phonebook/brigitta-toth>*Hungarian Academy of Sciences <http://www.ttk.mta.hu/en/phonebook/brigitta-toth> * *Bev Wright,* Northwestern University <https://communication.northwestern.edu/faculty/BeverlyWright> * more TBA *Travel, accommodation, visitor information* see workshop webpage: http://pcl.upjs.sk/workshop2019/ *Registration* The workshop is open to all interested students/scientists. Registration is free of charge but required. To register, please send an email to kogneuro(a)gmail.com stating your name and affiliation and the dates on which you are planning to attend. All accepted abstracts will be published on the workshop website. No proceedings will be published. In case you would like to have a presentation please send us an abstract (up to 200 words; also indicate whether you prefer poster or oral presentation) no later than May 10, 2019. This workshop is supported by theEU H2020-MSCA-RISE-2015 project #691229 <http://pcl.upjs.sk/grants/alt/>.

Feb. 28, 2019