June 2024 - Comp-neuro - lists.cnsorg.org

Late-breaking poster abstract submission for the 32nd Annual Computational Neuroscience Meeting ends on June 15
by Rubchinsky, Leonid L March 10, 2025

March 10, 2025

Dear Colleagues, We would like to remind that the late-breaking poster abstracts submission at CNS*2023 ends on June 15. CNS*2023, 32nd Annual Computational Neuroscience Meeting, will be in Leipzig, Germany, on July 15-19, 2023. The information about the meeting and abstract submission can be found here: Registration: https://ocns.memberclicks.net/cns-2023-registration Abstract submission: https://www.cnsorg.org/cns-2023-abstract-submission CNS*2023 information: https://www.cnsorg.org/cns-2023 With kind regards, Leonid Rubchinsky OCNS Vice President *********************** Leonid Rubchinsky, PhD Professor Department of Mathematical Sciences, Indiana University Purdue University Indianapolis Stark Neurosciences Research Institute, Indiana University School of Medicine 402 N. Blackford St Indianapolis, IN 46202-3216 lrubchin(a)iupui.edu http://www.math.iupui.edu/~lrubchin ***********************

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Save the date: UK Neural Computation meeting July 8-10th, Sheffield
by Mark Humphries Jan. 24, 2025

Jan. 24, 2025

Save the date! The UK Neural Computation meeting is in Sheffield for 2024, the gathering of the UK’s computational and systems neuroscience community 8 July: ECR day 9-10 July: main meeting 11 invited speakers, 4 talks from abstracts and loads of posters Abstract submission and registration opening soon Please spread the word! More details: https://neuralcomputation.uk/ Enquiries: uknc24(a)sheffield.ac.uk<mailto:uknc24@sheffield.ac.uk> Organisers Hannes Saal (Sheffield) Stuart Wilson (Sheffield) Mark Humphries (Nottingham) This message and any attachment are intended solely for the addressee and may contain confidential information. If you have received this message in error, please contact the sender and delete the email and attachment. Any views or opinions expressed by the author of this email do not necessarily reflect the views of the University of Nottingham. Email communications with the University of Nottingham may be monitored where permitted by law.

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Postdoctoral Researcher position at Goettingen Campus Institute for Dynamics of Biological Networks, University of Goettingen
by von Behren, Christina Dec. 16, 2024

Dec. 16, 2024

Dear Scientists, The Göttingen Campus Institute for Dynamics of Biological Networks (CIDBN)<https://www.uni-goettingen.de/de/608362.html> invites applications for a position of Postdoctoral Researcher in Computational Biophysics (all genders welcome) The position will be full-time (currently 39,8 hours/week), German pay grade 13 TV-L, starting as soon as possible. The CIDBN Department "Physics of Biological Systems", headed by Prof. Fred Wolf, offers a fixed-term contract until June 30, 2025 with the perspective of an extension commensurate with building a competitive track record at the frontier of computational biophysics and neural circuit theory. Information is processed in brain circuits through the coordinated action of large-scale circuits of neurons and synapses. Ultimately, it is the nano-scale molecular architecture of neuronal synapses that can make or break the power of neural circuit computation. Progress in a broad suite of nanoscopy techniques is currently uncovering the molecular-level design of synapses subserving functions such as working memory or sensory coding. The spatio-temporal operation of these nano-machines and the efficiency of their design, however, remain to be understood and are core research aims of the Göttingen Collaborative Research Centre (CRC) 1286 "Quantitative Synaptology"<https://www.sfb1286.de/?lang=en>. We are inviting applications from theoretical biophysicists, molecular systems biologists, or computational scientists with an ambition to pioneer computational studies of synaptic functional design. We offer a stimulating environment of theoretical neuroscientists, neural data-scientists, and cutting-edge experimentalists associated with CRC 1286. In addition, the institute provides dedicated support for high-performance computing. We are dedicated to supporting the growth of original research personalities at the frontier of computational science and neural circuit theory. The successful applicant will hold an excellent PhD in physics, applied mathematics, computer science, or equivalent, and have a strong interest in high-performance computing in neuroscience or cellular systems biology. We expect excellent analytical and coding skills, interest in working in a transdisciplinary team as well as excellence in scientific writing and reasoning. Experience in non-equilibrium statistical physics, stochastic dynamics, membrane biophysics, ion-channel and biochemical kinetics, buffered Ca-diffusion, and Ca-exocytosis coupling would be advantageous. The Göttingen Campus is a leading center of neuroscience in Europe hosting numerous internationally renowned research institutions, including the University, the University Medical Center, two life science Max Planck Institutes, the European Neuroscience Institute, the German Primate Center, and the Bernstein Center for Computational Neuroscience Göttingen. The CIDBN is a newly founded transdisciplinary institute whose mission is to foster frontier research at the border of the exact and biological sciences. The University of Göttingen is an equal opportunities employer and places particular emphasis on fostering career opportunities for women. Qualified women are therefore strongly encouraged to apply. The university has committed itself to being a family-friendly institution and supports their employees in balancing work and family life. The mission of the University is to employ a greater number of severely disabled persons. Applications from severely disabled persons with equivalent qualifications will be given preference. Please send your e-mail application in one single PDF-document, including a letter of motivation, your curriculum vitae with a list of publications, copies of your certificates and contact information of two references to cidbn(a)uni-goettingen.de<mailto:cidbn@uni-goettingen.de> (subject: Postdoc CIDBN). The position remains open until filled. Georg-August-Universität Göttingen Göttingen Campus Institute for Dynamics of Biological Networks Heinrich-Düker-Weg 12, 37073 Göttingen. If you have any questions, please contact Prof. Fred Wolf via e-mail: fred.wolf(a)ds.mpg.de<mailto:fred.wolf@ds.mpg.de>. Please note: With submission of your application, you accept the processing of your applicant data in terms of data-protection law. Further information on the legal basis and data usage is provided in the Hinweisblatt zur Datenschutzgrundverordnung (DSGVO) https://www.uni-goettingen.de/hinweisdsgvo <https://www.uni-goettingen.de/hinweisdsgvo%20> Best regards, Christina von Behren ------ Goettingen Campus Institute for Dynamics of Biological Networks Bernstein Center for Computational Neuroscience Goettingen University of Goettingen Heinrich-Dueker-Weg 12 37073 Goettingen Germany Tel.: +49-(0)551-39-26674

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PhD position on predictive representations / dynamic RSA, CIMeC, Uni Trento, Italy
by Moritz Wurm Nov. 17, 2024

Nov. 17, 2024

We are seeking for a highly motivated PhD student to join the Action Recognition and Concepts Group <https://www.cimec.unitn.it/en/929/action-recognition-and-concepts-group> at CIMeC (Center for Mind/Brain Sciences), University of Trento, Italy. The research project will focus on an MEG-based dynamic extension to representational similarity analysis (dynamic RSA <https://www.nature.com/articles/s41467-023-39355-y>) that we have recently developed in our lab to investigate predictive representations of dynamic events. We're looking for applicants who: · Have a strong drive to pursue a career in scientific research · Possess independent and critical thinking skills · Excel in collaborative teamwork · Have a background in cognitive neuroscience (preferably M/EEG or fMRI, MVPA/RSA) and strong programming skills (preferably Matlab) At CIMeC, you'll have access to cutting-edge research facilities, such as: · A brand new MEGIN TRIUX neo MEG system · A 3T MRI Siemens Prisma · TMS, EEG, and combined TMS-EEG setups · Human intracranial stereotactic EEG · Eye-tracking systems · Kinematic recording systems All equipment is dedicated 100% to research purposes, providing you with the ideal environment for testing your research questions. As a member of our lab and of the wider CIMeC community, you will be part of an international community of students and researchers in a vibrant scientific environment. The working language is English. Our lab enjoys numerous international collaborations, and we offer ample opportunities to engage with the broader scientific community through conferences, workshops, and international meetings, supported by research funding attracted by our lab. Living in Trentino offers a unique combination of natural beauty and cultural richness. Situated among stunning landscapes between the Dolomites and Lake Garda, it provides a serene setting where you can appreciate nature alongside various cultural activities and sports. Trentino is undoubtedly one of the most beautiful regions in Italy, offering an exceptional quality of life alongside your academic pursuits. Deadline to apply is June 24. Find more information on CIMeC’s doctoral program here <https://www.unitn.it/drcimec/>. If you are thrilled to contribute to our research in cognitive neuroscience, please send an informal inquiry, including a CV and a brief statement of research interests, to moritz.wurm(a)unitn.it <mailto:moritz.wurm@unitn.it>. We look forward to hearing from you! Best wishes, Moritz Wurm

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PhD-Researcher and Lecturer, Neurocomputation of Language, Tilburg University (1.0 fte, six years)
by Harm Brouwer Sept. 27, 2024

Sept. 27, 2024

PhD-Researcher and Lecturer, Neurocomputation of Language, Department of Cognitive Science and Artificial Intelligence, Tilburg University (1.0 fte, six years) The Neurocomputation of Language (NCL) lab from the Department of Cognitive Science & Artificial Intelligence (CSAI) at Tilburg University invites applications for a 6-year position. The successful applicant for this position would spend 60% of their time as a PhD student and 40% as a lecturer. The PhD project would be determined by the successful applicant and the lab director but should employ advanced statistical modeling and/or neurocomputational modeling to address one or more of the core themes of the lab: the nature and time course of language comprehension, the neural representation and computation of meaning, and the cortical organization of the language network. The educational tasks of the candidate could include leading practical sessions, grading assignments and exams, and (eventually) supervising thesis students. Requirements * Master’s degree in (computational) cognitive (neuro)science, neurobiology of language, or a related field. If you expect to obtain your degree before August 2024, you are also eligible. * Good knowledge of statistics and machine learning (practical experience with large language models is a plus). * Excellent knowledge of English and good academic writing skills. What we offer * A full-time position. * The selected candidate will receive a contract for six years. * You will receive a temporary employment contract for the duration of 12 months. A 5-year extension is offered upon a positive assessment. After one year your UFO profile will change to PhD Candidate / Lecturer. In the second year your initial education assignment is 40% and your research assignment is 60%. * A minimum gross salary of €3226- per month up to a maximum of € 4036- in the 6th year. For the duration of 12 months, you are entitled to a allowance. The amount is the difference in salary of scale 10 level 0 and scale PR level 0. * A holiday allowance of 8% and an end-of-year bonus of 8.3% (annually). * Researchers from outside the Netherlands may qualify for a tax-free allowance equal to 30% of their taxable salary (the 30% tax regulation). The University will apply for such an allowance on their behalf. Note that the 30% rule will be scaled back from 1 January 2024. For new applications, during a five-year term, the scheme will gradually decrease to a 10% rule. More specifically, this means that during the first 20 months of the term, 30% of the salary will be reimbursed untaxed. In the next 20 months, this percentage drops to 20% and during the last 20 months, the untaxed reimbursement is 10% of the salary. * Assistance in finding accommodation (for foreign employees). * Benefits such as an options model for terms and conditions of employment and reimbursement of moving expenses, also including excellent technical infrastructure, savings schemes and excellent sports facilities. The collective labor agreement of the Dutch Universities applies. Information and application More detailed project information can be provided on request: please contact dr. Harm Brouwer (h.brouwer(a)tilburguniversity.edu<mailto:h.brouwer@tilburguniversity.edu>), PI of the Neurocomputation of Language lab. To apply, please submit: * a motivation letter in which you describe why you want to be considered for this position, and why you are the right person to do it; * a full curriculum vitae, demonstrating academic excellence, including publications (if applicable); academic transcripts of your Bachelor and Master’s degrees; * a sample of writing, such as your Master’s thesis or a relevant paper; * contact details of two academic referees. The only way to apply is online<https://career5.successfactors.eu/career?career%5fns=job%5flisting&company=…>. The first deadline for application is July 21, 2024, the position is open until filled. The starting date of this position is negotiable but preferably no later than October 1st, 2024. Neurocomputation of Language lab The Neurocomputational of Language (NCL) lab combines neurocomputational modeling with empirical experimentation to investigate the neural basis of language. Grounded in principles of neural information processing, and informed by empirical insights on the nature and time course of comprehension, our models aim to offer mechanistic explanations of how an interpretation is constructed in real time as spoken or written linguistic signal unfolds on a, more or less, word-by-word basis. See the lab website for more information: https://www.tilburguniversity.edu/about/schools/tshd/departments/dca/lab/ne… The department of Cognitive Science & Artificial Intelligence (CSAI) The Cognitive Science and Artificial Intelligence department (https://csai.nl/) at Tilburg University is part of the Tilburg School of Humanities and Digital Sciences. The department emphasizes innovative research spanning a wide array of fields including computational linguistics and language technology, data-science, human-robot interaction, virtual reality and serious games. CSAI is a member of the Benelux Association for Artificial Intelligence, participates in the Special Interest Group for AI (SIG AI), and also participates in the Confederation of Laboratories for Artificial Intelligence Research in Europe (CLAIRE). Tilburg University and the CSAI department offer a vibrant international environment, with current CSAI staff originating from more than 10 countries. Tilburg School of Humanities and Digital Sciences Research and education at the Tilburg School of Humanities and Digital Sciences (TSHD) has a unique focus on humans in the context of the globalizing digital society, on the development of artificial intelligence and interactive technologies, on their impact on communication, culture and society, and on moral and existential challenges that arise. The School of Humanities and Digital Sciences consists of four departments: Communication and Cognition, Cognitive Science and Artificial Intelligence, Culture Studies and Philosophy; several research institutes and a faculty office. Also the University College Tilburg is part of the School. Each year around 275 students commence a Bachelor or (Pre) Master Program. The School has approximately 2000 students and 250 employees. Tilburg School of Humanities and Digital Sciences<https://www.tilburguniversity.edu/about/schools/humanities/> Recruitment code Tilburg University applies the recruitmentcode<https://kmt.nvp-hrnetwerk.nl/download/?id=21374> of the Dutch Association for Personnel Management & Organization Development (NVP). Disclaimer The text of this vacancy advertisement is copyright-protected property of Tilburg University. Use, distribution and further disclosure of the advertisement without express permission from Tilburg University is not allowed, and this applies explicitly to use by recruitment and selection agencies which do not act directly on the instructions of Tilburg University. Responses resulting from recruitment by non-contractors of Tilburg Universities will not be handled. -- [ Dr. Harm Brouwer, Associate Professor [ Cognitive Science and Artificial Intelligence, Tilburg University [ E-mail: h.brouwer(a)tilburguniversity.edu<mailto:h.brouwer@tilburguniversity.edu> [ http://www.hbrouwer.eu/

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Python Package: SER model
by Fabrizio Damicelli Aug. 8, 2024

Aug. 8, 2024

Dear Computational Neuroscience Community, I would like to point you to a potentially useful Python Package that might be of interest for your research, especially in the realm dynamical models and spreading dynamics on networks. "ser": S(usceptible)E(xcited)R(efractory) model on graphs, a dynamical model of spreading excitations. Code Repository: https://github.com/fabridamicelli/ser As of today, a few people already trust it and the package registers >11K total downloads, ~500/month (pypi.org) and has been used already in a few research projects. A few interesting features: - It is light-weight and fast (`numba` accelerated), i.e. many experiments can be simply run on a laptop - Installation and getting started is easy: `pip install ser` - Example notebooks: https://github.com/fabridamicelli/ser/blob/main/examples The SER model is a classical cellular automaton model used to study all sorts of complex systems, ranging from forest fire dynamics to self-organized criticality in the brain. Despite of the simplicity of its setup, it is capable of generating complex emergent dynamics with absolutely non-trivial higher-order statistical properties. To learn more about the SER model and its applications, you might want to check out these references: - Messe et al. (2018). Toward a theory of coactivation patterns in excitable neural networks. doi.org/10.1371/journal.pcbi.1006084 - Haimovici et al. (2013). Brain Organization into Resting State Networks Emerges at Criticality on a Model of the Human Connectome. doi.org/10.1103/PhysRevLett.110.178101 - Damicelli et al. (2019). Topological reinforcement as a principle of modularity emergence in brain networks. doi.org/10.1162/netn_a_00085 Check it out and any feedback/suggestions/bug reports are more than welcome (simply open an issue: https://github.com/fabridamicelli/ser/issues) All the best, Fabrizio Damicelli

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Adam Tyson: Software Tools for Systems Neuroscience @ INCF/OCNS Software WG session on 9th July, 1500 UTC
by Ankur Sinha July 8, 2024

July 8, 2024

Dear all, Apologies for the cross posts. Please do spread the word to interested colleagues. Adam Tyson from the Neuroinformatics Unit at the Sainsbury Wellcome Centre will talk about the software tools that their group develops at the next INCF/OCNS Software Working Group (WG) session on July 09 at 1500 UTC. There will be a Q&A/discussion session after the presentation, followed by any WG business. Please find the abstract and joining information below: - When: July 9, 1500 UTC - Where: Zoom: https://ucl.zoom.us/j/91017703246?pwd=RmdwMW9xL0FFaFVVL0Z6dUtnbkplZz09 - Web page: https://ocns.github.io/SoftwareWG/2024/06/26/wg-meeting-9-july-2024-softwar… Abstract: Understanding the brain requires processing and analysing large, multidimensional datasets. Systems neuroscience, in particular, has undergone a drastic transformation, with individual labs now commonly generating terabytes or even petabytes of data annually. While there has been an increase in software tools to process this data, many of these tools are single-purpose, inadequately maintained, or poorly integrated with the broader software ecosystem. This talk will outline some of the tools we are developing for computational neuroanatomy, video behavioural analysis, and data management. About the speaker: Adam Tyson is the Head Research Engineer at the Sainsbury Wellcome Centre and Gatsby Computational Neuroscience Unit at University College London. He established the Neuroinformatics Unit, a research software engineering team dedicated to developing robust, maintainable, and user-friendly software tools for neuroscience and machine learning. Adam completed a PhD in neuroscience at King's College London before working as a software developer at the Institute of Cancer Research and the Sainsbury Wellcome Centre. Resources/links: - BrainGlobe: https://brainglobe.info/ - Movement: https://movement.neuroinformatics.dev/ - NeuroBluePrint: https://neuroblueprint.neuroinformatics.dev/ - Neuroinformatics Unit: https://neuroinformatics.dev/ - Sainsbury Wellcome Centre: https://www.sainsburywellcome.org/web/ - Gatsby Computational Neuroscience: https://www.ucl.ac.uk/gatsby/gatsby-computational-neuroscience-unit On behalf of the WG, -- Thanks, Regards, Ankur Sinha (He / Him / His) | https://ankursinha.in Research Fellow at the Silver Lab, University College London | http://silverlab.org/ Free/Open source community volunteer at the NeuroFedora project | https://neuro.fedoraproject.org Time zone: Europe/London

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Postdoc in physics-based machine learning jointly with the MedTech industry
by Erik Fransén June 30, 2024

June 30, 2024

Postdoc in physics-based machine learning jointly with the MedTech industry Are you looking for a postdoc combining academic research in machine learning with close collaboration with the industry? Do you want to join our research group at KTH developing fundamental machine learning times series algorithms and the team at Getinge producing the next generation ventilators for the intensive care? Are you passionate about physical simulation and proficient in parameter estimation? If so, we believe you will find our project developing a digital twin of the respiratory system a perfect match. Find the ad and apply: https://kth.varbi.com/en/what:job/jobID:739922/ Best regards, Erik Fransén and Elira Maksuti

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Online Vocational Internship: Python programing and Hypothesis Testing
by PRANAV NERURKAR June 28, 2024

June 28, 2024

Dear all, Apologies for the cross posts. Please spread the word to interested colleagues. Greetings Hope you are doing well. We are launching an internship. Registration: https://internships.utkarshminds.com/ In summary this two months internship has: 1. Students will learning advanced data analysis and work on 25 projects 2. After completion they can get a internship completion certificate 3. They can add in their resume and increase chances of getting a job 4. Only a one time fee of Rs. 99 (USD 2/EURO 2) is taken from them *Description:* This internship is designed to equip you with the essential skills and knowledge to become an Applied Python Developer. You will learn how to write efficient Python code, work with data structures, handle file operations, and build real-world applications using Python. *Key Highlights:* 1. Learn to write efficient Python code 2. Master data structures and algorithms in Python 3. Build real-world applications with Python *What you will learn:* 1. Write Efficient Python Code 2. Learn best practices for writing clean, readable, and efficient Python code 3. Data Structures and Algorithms 4. Master essential data structures and algorithms in Python for effective problem solving 5. Build Real-world Applications 6. Apply your Python skills to build practical applications and projects Regards *Pranav A. NERURKAR* Specialist - AI & Data science UTKARSH MINDS +91 961-999-77-97 pranav.nerurkar@ <amandine.deplantes(a)igonogo.io>utkarshminds.com www.utkarshminds.com Nirmala Sadan, Jaya Nagar, Kasturba cross road no. 1, Mumbai - 400066

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Early bird registration CLOSING TOMORROW
by INCF June 27, 2024

June 27, 2024

Join us at the INCF Neuroinformatics Assembly 2024 <https://neuroinformatics.incf.org/> on Sep 23-25 at the University of Texas at Austin! Early bird registration <https://neuroinformatics.incf.org/register> closes tomorrow - register before end-of-day on Fri Jun 28 to get the early bird price! The INCF Assembly is a unique venue where neuroscience standards developers, infrastructure providers, and software developers have the opportunity to interact with the research community to share the latest advancements in neuroinformatics. The meeting is followed by 3 training courses: Driving collaboration in neurophysiology with NWB and DANDI, Introduction to reproducible neuroimaging data processing and analysis, and DataJoint pipelines for your neuroscience experiments on Sep 26-27. This year's theme Brain Meets AI: Pioneering the Future of Neuroinformatics Our keynote speakers are Elisabeth Bik (Microbiome Digest), Timo Dickscheid (Jülich Research Cente), Hanchuan Peng (SEU-ALLEN Joint Center), Danilo Bzdok (Mila - Quebec Artificial Intelligence Institute), and Viktor Jirsa (Institut de Neurosciences des Systemès). See you at Assembly 2024! /The INCF Team

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