- Comp-neuro - lists.cnsorg.org

Working group publication: Active Segmentation for ImageJ

by Heather Topple

INCF's Active Segmentation for ImageJ working group - including GSOC students - has just published a paper in Brain Sciences as part of a special issue on neuroinformatics and signal processing. Congratulations to mentors Dimiter Prodanov & Sumit Vohra, and GSOC students Mukesh Gupta, Sanjeev Dubay, Joanna Stachera, Raghavendra Singh Chauhan, & Piyumal Demotte! Learn more about it here: bit.ly/INCFwgActiveSegblog Read the paper here: bit.ly/ActiveSegmentationpaper Please feel free to forward this email to anyone in your network you feel would be interested. All the best, ---------------------------- The INCF Secretariat International Neuroinformatics Coordinating Facility Secretariat Karolinska Institutet. Nobels väg 15A, SE-171 77 Stockholm. Sweden <https://www.google.com/maps/search/Nobels+v%C3%A4g+15A,+SE-171+77+Stockholm…> Phone: +46 085 248 70 65 incf.org neuroinformatics.incf.org

Jan. 13, 2022

Shanahan Foundation Fellowship at the Interface of Data and Neuroscience - apply now!

by Eric Shea-Brown

Overview The Shanahan Foundation Fellowship at the Interface of Data and Neuroscience is a three-year fellowship program that aims to: · Integrate data scientists in neuroscience research · Challenge traditional approaches to neuroscience · Provide multidisciplinary, multi-organizational co-mentorship · Provide a network and community · Support career development in data science The fellowship is co-hosted by the Allen Institute and the University of Washington (through the eScience Institute and the Computational Neuroscience Center) and is directed by Dr. Christof Koch at the Allen Institute. Neuroscience needs data scientists. The brain represents one of the most complex challenges facing science today. And now with advances in our methods to study the brain—Neuropixel probes that can record from 1000 neurons at once, growing consensus on data standards across laboratories—the field is flooded with data that needs interpretation. The skills of data scientists are essential to springboard the field to the next stage of discoveries. Towards that end, the Shanahan Foundation Fellowship was created to bring fresh perspectives into the field, encouraging data scientists from outside neuroscience to come and work with leading investigators at the Allen Institute and UW. The Allen Institute is unique in its infrastructure and pipeline that enables the production of standardized, reproducible data on the brain (as evidenced by our vast data banks <http://www.brain-map.org/>). Together with our collaborators at the UW computational Neuroscience Center and eScience Institute, we provide data scientists with the ideal opportunity and resources to mine for novel insights and discoveries. Details You do not need experience in neuroscience to apply. The goal of the fellowship is to provide opportunities to non-traditional applicants who would not typically be funded by the typical postdoctoral fellowships in neuroscience. The fellowship has been purposefully designed to give fellows the time and mentorship to get up to speed in a new field and new data collection techniques and methods. Fellows will be employed by the Allen Institute as either a Scientist I or a Scientist II (with a matching salary) and will receive an affiliate postdoctoral appointment at UW. During the three-year fellowship, fellows will identify a mentor at the Allen Institute, where the fellows will be based. Fellows will select a co-mentor at the University of Washington who will provide additional guidance on a project designed by the fellow, focused on quantitative analysis of neuroscience data available through the Allen Institute’s vast data banks <http://www.brain-map.org/> – ranging from molecular, genomic, transcriptional, physiological, morphological, anatomical and functional whole-brain level in the brains of mice, non-human primates and humans – or through ongoing laboratory work. Each fellow will have the opportunity to mentor a fully-funded UW undergraduate or postbaccalaureate research assistant who helps with their research for 3-12 months. Fellows will participate in the postdoctoral career development program at the University’s e-Science Institute and the UW Computational Neuroscience Center. The eSciences Institute offers regular workshops on key topics including cloud computing, python and reproducibility. New fellows will attend the annual Summer Workshop on the Dynamic Brain <https://alleninstitute.org/what-we-do/brain-science/events-training/summer-…> where they will learn how to apply data science skills to neuroscience data and questions. Throughout the three years, fellows will be supported in developing a network in the neuroscience field and sharing their progress with peers at conferences. Up to three fellows will be selected to begin in Fall 2022. Eligibility Requirements Applicants must be data scientists in a broad sense, with a Ph.D. in a quantitative field such as computer science, statistics, electrical engineering, physics, mathematics or biology with a background in statistical, computational and machine learning methods. Ph.D.’s should have been awarded in the last 3 years. One goal of the fellowship is to build a network of collaborators, as such, priority will be given to applicants who are not currently postdoctoral fellows or scientists at the University of Washington or the Allen Institute. We believe high-quality science can only be produced when it includes different perspectives. We are building an environment of diversity and inclusion and encourage people from all backgrounds to apply for this fellowship. Application Instructions For full consideration, please submit your application by February 1, 2022. Applications may continue to be considered after this deadline on a rolling basis until positions are filled. Learn more and apply on the Shanahan Fellowship Website <https://alleninstitute.org/what-we-do/brain-science/careers/shanahan-founda…>. https://alleninstitute.org/what-we-do/brain-science/careers/shanahan-founda… <https://alleninstitute.org/what-we-do/brain-science/careers/shanahan-founda…> Applications must include: · A curriculum vitae from the applicant · Two letters of support from advisors and other mentors · A one-page personal statement from the applicant describing their history, activities, and interests as an individual (especially those outside of science) which may give the committee a greater sense of you as a person and your ability to simultaneously interact with and challenge traditional scientific fields. · A two- to three-page research statement from the applicant describing their prior research, interests in applying data science to the field of neuroscience, potential research interests (including tools they are familiar with) and how this fellowship aligns with their career goals. · The choice of the final advisor/co-advisor will be accomplished during the first year of this fellowship. Questions? Email: shanahan.fellow(a)alleninstitute.org <mailto:shanahan.fellow@alleninstitute.org>

Jan. 12, 2022

Summer workshop on the dynamic brain -- apply now!

by Eric Shea-Brown

Applications are now open for the 2022 Summer Workshop on the Dynamic Brain. Founded by Adrienne Fairhall and Christof Koch, this annual two-week course is co-hosted by the Allen Institute MindScope Program and the Computational Neuroscience Center at the University of Washington. The Summer Workshop on the Dynamic Brain is an intensive, project-based residential course with a focus on the neurobiology of sensory processing, coding, and neural population dynamics. This program is intended for researchers at the graduate and postdoctoral level with an interest in developing the intersection of their scientific knowledge and their computational skills. Learn more and apply at https://alleninstitute.org/what-we-do/brain-science/events-training/summer-… Applications are due Feburary 1, 2022. Please contact dynamicbrain(a)alleninstitute.org with any questions.

Jan. 12, 2022

DENDRITES 2022 call for abstracts - Feb. 1st, 2022

by Yiota Poirazi

DENDRITES 2022 EMBO Workshop on Dendritic Anatomy, Molecules and Function Heraklion, Crete, Greece 23-26 May 2022 http://meetings.embo.org/event/20-dendrites Dear Colleagues, We are pleased to announce the solicitation of abstracts for short oral or poster presentations at the EMBO Workshop on DENDRITES 2022, which will take place in Heraklion, Crete on 23-26 May 2022. This is the 4th of a very successful series of meetings on the island of Crete that is dedicated to dendrites. The meeting will bring together scientific leaders from around the globe to present their theoretical and experimental work on dendrites. The meeting program is designed to facilitate discussions of new ideas and discoveries, in a relaxed atmosphere that emphasizes interaction. Please register (no payment required) and submit your abstract online at: http://meetings.embo.org/event/20-dendrites Submissions of abstracts are due by *February 1st, **2022* Notifications will be provided by February 28th, 2022 Registration payment due by April 15th, 2022 Potential attendees are strongly encouraged to submit an abstract as presenters will have registration priority. For more information about the conference, please refer to our web site or send email to info(a)mitos.com.gr We look forward to seeing you in person at DENDRITES 2022! The organizers, Yiota Poirazi, Kristen Harris, Matthew Larkum, Michael Häusser -- Panayiota Poirazi, Ph.D. Research Director Institute of Molecular Biology and Biotechnology (IMBB) Foundation of Research and Technology-Hellas (FORTH) Vassilika Vouton, P.O.Box 1385, GR 70013, Heraklion, Crete GREECE Tel: +30 2810-391139 /-391238 Fax: +30 2810-391101 Εmail: poirazi(a)imbb.forth.gr Lab site: www.dendrites.gr -- Panayiota Poirazi, Ph.D. Research Director Institute of Molecular Biology and Biotechnology (IMBB) Foundation of Research and Technology-Hellas (FORTH) Vassilika Vouton, P.O.Box 1385, GR 70013, Heraklion, Crete GREECE Tel: +30 2810-391139 / -391238 Fax: +30 2810-391101 Εmail: poirazi(a)imbb.forth.gr Lab site: www.dendrites.gr

Jan. 11, 2022

POSTPONED - Women in Memory Research - Workshop - March 7-9, 2022

by Vinita Samarasinghe

Dear all, due to the increasing incidence numbers here in Germany we have decided to postpone the WiMR workshop. It will instead be held in summer 2023 in conjunction with the conference GEM 2023. Call for papers and conference and workshop details will be posted here, and on our website https://for2812.rub.de, once they have been finalized. We look forward to greeting you here in Bochum, Germany in 2023 and apologize for any inconvenience caused. Kind regards, Vinita Samarasinghe M.Sc., M.A. Science Manager Arbeitsgruppe Computational Neuroscience Institut für Neuroinformatik Ruhr-Universität Bochum, NB 3/73 Postfachnummer 110 Universitätstr. 150 D-44801 Bochum Tel: +49 (0)234 32 27996 Email: samarasinghe(a)ini.rub.de On 23.12.21 14:17, Vinita Samarasinghe wrote: > > In conjunction with International Women's Day the FOR 2812 is > organising its first “*Women in Memory Research*” event from *March > 7-9, 2022.* > > The percentage of senior female university researchers in our field > (in Germany) lies between 21% and 29%. Our goal is to increase these > numbers! So come and learn what an academic career looks like at the > Ruhr University Bochum and discover its advantages. You'll be > introduced to the university and it's support structures, be able to > participate in university wide programs, meet with female faculty, > listen to some amazing scientific talks, present your research, and > see what collaborative research looks like in the RUB memory research > community. > > Sounds exciting? > > *Who can apply:*Female master’s students in their final year of study > and recently graduated master’s students who are looking into an > academic career in the area of memory research/neuroscience. > Applicants must have excellent grades and be able to communicate in > English. Selection of participants is competitive. We only have space > for 12 participants! > > *How to apply:*Send your application including a one page letter of > motivation, a current CV, master’s transcripts and a letter of > recommendation from one of your professors. Your application should be > sent, as a single PDF document, to Vinita Samarasinghe > @for2812@rub.deby January 23, 2022. If you need child care or any > other support please note this in your application. > > *What to expect:*We will provide accommodation and cover travel costs > of up to 500 Euro (some meals are included). The program will be > offered in English; however, certain programs offered by the Ruhr > University in conjunction with International Women's Day may be only > available in German. You will be asked to present your current > research in the form of a poster. > > *Contact:*Vinita Samarasinghe,for2812(a)rub.de, Tel: +49 234 32 27996, > https://for2812.rub.de > > -- > Vinita Samarasinghe M.Sc., M.A. > > Science Manager > Arbeitsgruppe Computational Neuroscience > Institut für Neuroinformatik > Ruhr-Universität Bochum, NB 3/73 > Postfachnummer 110 > Universitätstr. 150 > 44801 Bochum > > Tel: +49 (0) 234 32 27996 > Email:samarasinghe@ini.rub.de

Jan. 11, 2022

postdoctoral position in the Canavier lab

by Canavier, Carmen C.

A postdoctoral position will become available in the very near future in the Canavier computational neuroscience lab at LSU Health Science Center in New Orleans, Louisiana. Our lab focuses on modeling single neurons and networks in a synergistic loop with experimental collaborators Jochen Roeper, John White and Sonia Gasparini. We are interested in how oscillations are generated and how networks synchronize, and in how the intrinsic properties of neurons contribute to how they integrate their inputs. A quantitative background in electrical engineering, physics, mathematics, computer science or a related field coupled with a passion for applying quantitative techniques and theory to neuroscience is required. We are primarily interested in 1) theta and gamma oscillations in the hippocampus and 2) in the dopamine neurons of the basal ganglia. Please contact Dr. Canavier at ccanav(a)lsuhsc.edu<mailto:ccanav@lsuhsc.edu> for more information.

Jan. 10, 2022

EARLY CAREER SCIENTIST GRANT OPPORTUNITIES- Open January 2022

by Laura Long

The Simons Foundation is invested in supporting the next generation of researchers. Our Independence Awards programs promote talented early-career scientists by facilitating their transition to research independence and providing grant funding at the start of their professorships. We are offering such awards through three of our programs: the Simons Foundation Autism Research Initiative (SFARI), the Simons Collaboration on the Global Brain (SCGB) and the Simons Collaboration on Plasticity and the Aging Brain (SCPAB). These requests for applications (RFAs) are aimed at Ph.D. and M.D. – holding scientists who are currently in training positions and intend to seek tenure-track faculty positions over the next two years (i.e., 2022-2024). Successful applicants will receive a commitment of $495,000 over three years, activated upon assumption of a tenure-track professorship. Visit bit.ly/3yqWILX for more information on all three programs.

Jan. 10, 2022

Summer Undergraduate Computational Neuroscience Apprenticeship

by Neymotin, Samuel (NKI)

Several Army Research Office (ARO) undergraduate research apprenticeship program (URAP) positions are available for the summer of 2022 at the Nathan Kline Institute for Psychiatric Research (https://www.nki.rfmh.org/) Research will be conducted to help achieve the goals of an ARO grant that aims to train neocortical circuit models to play video games using biologically-plausible learning rules, and to compare model performance against commonly used deep reinforcement learning algorithms. Students will have the opportunity to learn cutting edge methods in computational neuroscience, machine learning, and Python software development, and publish their results. Several manuscripts under review, that included previous URAP students are available on Biorxiv here: https://www.biorxiv.org/content/10.1101/2021.07.29.454361v1 https://www.biorxiv.org/content/10.1101/2021.11.20.469405v1 Candidates will be considered based on their experience in computational neuroscience, machine learning, and Python programming. Candidates in the NYC metropolitan area will be preferred. Apply at https://www.usaeop.com/program/undergraduate-apprenticeships/ Make sure to use code U803 (Nathan Kline Institute) and apply by the deadline (February 28, 2022). Letters of recommendation are optional. For questions, email Samuel.Neymotin(a)nki.rfmh.org ________________________________ IMPORTANT NOTICE: This e-mail is meant only for the use of the intended recipient. It may contain confidential information which is legally privileged or otherwise protected by law. If you received this e-mail in error or from someone who was not authorized to send it to you, you are strictly prohibited from reviewing, using, disseminating, distributing or copying the e-mail. PLEASE NOTIFY US IMMEDIATELY OF THE ERROR BY RETURN E-MAIL AND DELETE THIS MESSAGE FROM YOUR SYSTEM. Thank you for your cooperation.

Jan. 5, 2022

postdoc position involving psychophysics and fMRI to study visual consciousness

by Brascamp, Jan

The Brascamp Lab for Visual Neuroscience at Michigan State University is seeking a Research Associate (postdoc). The Research Associate will be researching the neural basis of conscious vision, as part of a multi-site project funded by the Templeton World Charity Foundation and performed at Michigan State University in collaboration with researchers at NYU, UC Irvine, and Boston University (shorturl.at/ackpE<http://shorturl.at/ackpE>). The work involves visual psychophysics and functional neuroimaging. The Brascamp Lab is located within the Department of Psychology and is a part of the Department's Cognition and Cognitive Neuroscience group, which provides an excellent research and training environment with faculty expertise covering a broad range of topics in perception and cognitive psychology. The Research Associate will be stationed at MSU, and the project may require a limited time spent in Amsterdam, the Netherlands, for data acquisition. This is initially a one-year position with the possibility of extension. Minimum Requirements include a Ph.D. in vision science, cognitive psychology, neuroscience, or a related field. Applicants should have a strong publication record, experience with psychophysics and/or human neuroimaging, strong programming skills (Python or related language(s)), and strong statistical training. Desired Qualifications: the ideal candidate will have excellent interpersonal and communication skills, and the ability to work independently. Please send inquiries or application materials (a letter of interest, CV, and contact information of three references) to brascamp(a)msu.edu<mailto:brascamp@msu.edu>. Review of applications will begin immediately.

Jan. 4, 2022

Neuro2022 in Okinawa: Abstract submission by January 20th

by Kenji Doya

NEURO2022 June 30 - July 3, 2022, Okinawa, Japan https://neuro2022.jnss.org/en/ Plenary Lectures: Anne Churchland, University of California, Los Angeles Martin Schwab, University of Zurich Erin M. Schuman, Max Planck Institute for Brain Research Brain Prize Lecture: Adrian Peter Bird, University of Edinburgh Neuro2022 is a joint conference of Japanese Neuroscience, Neurochemistry and Neural Networks Societies, held at Okinawa Convention Center and adjacent seaside facilities: https://www.oki-conven.jp The conference aims to be a forum for neuroscientists, clinical researchers, machine learning and AI engineers from around the world. All scientific programs will be in English and the conference will be in a hybrid format to allow online participation. Abstract submissions are open till January 20th, 8am UTC. Please visit the web site for details: https://neuro2022.jnss.org/en/abstract.html Neuro2022 is preceded by OIST Computational Neuroscience Course https://groups.oist.jp/ocnc and followed by the second edition of International Symposium on AI and Brain Science http://www.brain-ai.jp/symposium2020/ both held at Okinawa Institute of Science and Technology https://www.oist.jp https://groups.oist.jp/conference-venues We hope to see many of you on this beautiful semitropical island in this coming summer. Best wishes, Kenji Doya, Japan Neuroscience Society Kohtaro Takei, Japanese Society for Neurochemistry Kazushi Ikeda, Japanese Neural Network Society ---- Kenji Doya <doya(a)oist.jp> Neural Computation Unit, Okinawa Institute of Science and Technology Graduate University 1919-1 Tancha, Onna, Okinawa 904-0495, Japan Phone: +81-98-966-8594; Fax: +81-98-966-2891 https://groups.oist.jp/ncu

Jan. 4, 2022