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Reminder: Deadline is tomorrow (March 15) for Fellowships for IBBM Course in Park City, Utah

by Rob MacLeod

Dear Colleagues, Just a quick reminder that tomorrow is the deadline for all submissions for fellowships to the Image Based Biomedical Modeling (IBBM) Summer Course in July, 2016. We encourage you to forward this email to your group and your community. If you have any question please let me know. Fellowship Application Deadline : March 15, 2016 Early Bird Registration Deadline: May 15, 2016 Registration Deadline: June 10, 2016 We look forward to welcoming you to Utah this summer. Best, The IBBM Team Park City Summer Course in Image Based Biomedical Modeling July 11-21, 2016 Newpark Resort in Park City, Utah ibbm.sci.utah.edu <http://ibbm.sci.utah.edu/> Contact: ibbm(a)sci.utah.edu <mailto:ibbm@sci.utah.edu> For Graduate Students, Postdocs, Faculty, and Industry. We invite students underrepresented in health-related sciences to apply. This course creates field-specific expertise and hands-on experience in bioelectric or biomechanical problems that arise in current biomedical research and clinical practice. It provides training in numerical methods, image analysis, and computational tools necessary to carry out end-to-end, image-based, subject-specific simulations in bioelectricity or biomechanics, using freely available software. Organizers: Rob Macleod, Jeff Weiss, and Ross Whitaker Supported by the National Institutes of Health (NIH), National Institute of General Medical Sciences (NIGMS)

March 14, 2016

CIBB2016 - Computational Intelligence methods for Bioinformatics and Biostatistics

by Andrea Bracciali

[Apologies for cross-postings] ======================================================================= CALL FOR PAPERS and SPECIAL SESSIONS ======================================================================= ======================================================================= CIBB 2016 13th International Meeting on Computational Intelligence methods for Bioinformatics and Biostatistics University of Stirling, Stirling, Scotland UK September 1-3 2016 http://www.cs.stir.ac.uk/events/cibb2016/ cibb2016(a)gmail.com ======================================================================= Scope The main goal of this 13th edition of the CIBB international conference is to provide a multi-disciplinary forum open to researchers interested in the application of computational intelligence, in a broad sense, to open problems in bioinformatics, biostatistics, systems and synthetic biology and medical informatics. Cutting edge methodologies capable of accelerating life science discoveries will be discussed. Following its tradition and roots, this year's meeting will bring together researchers from the international scientific community interested in advancements and future perspectives in bioinformatics and biostatistics. Also, looking at current trends and future opportunities at the edge of computer and life sciences, the application of computational intelligence to system and synthetic biology, and the consequent impact on innovative medicine will be of great for the conference. Theoretical and experimental biologists are also invited to participate in order to present novel challenges and foster multidisciplinary collaboration. The scientific program of CIBB 2016 will include Keynote Speakers, tutorials and special sessions. Contributed papers will be presented in plenary oral sessions, special sessions, or poster sessions. Topics of interest include, but are not restricted to: · Next generation sequencing bioalgorithms · Multi-omics data analysis · High dimensional statistical analysis of omics data · Algorithms for alternative splicing analysis · Algorithms for molecular evolution and phylogenetic analysis · Methods for the visualization of high dimensional complex omic data · Software tools for bioinformatics · Methods for comparative genomics · Methods for functional classification of genes · Methods for unsupervised analysis, validation and visualization of structures discovered in bio-molecular data · Health-Informatics and Medical Informatics. · Methods for the integration of clinical and genetic data · Heterogeneous data integration and data fusion for diagnostics · Algorithms for pharmacogenomics · Biomedical text mining and imaging · Methods for diagnosis and prognosis within personalized medicine · Statistical methods for the analysis of clinical data · Prediction of secondary and tertiary protein structures · Mass spectrometry data analysis in proteomics · Algorithms for molecular evolution and phylogenetic analysis · Bio-molecular databases and data mining · Mathematical modeling and automated reasoning on biological and synthetic systems · Computational simulation of biological systems · Methods and advances in systems biology · Spatio-temporal analysis of synthetic and biological systems · Network systems biology · Models for cell populations and tissues · Methods for the engineering of synthetic components · Modelling and engineering of interacting synthetic and biological systems · Software tools for bioinformatics, biostatistics, systems and synthetic biology Publication Accepted papers will be presented at the conference (at least one author is expected to register), and will be published on proceedings for conference distribution. Extended and revised versions of the papers presented at CIBB 2016 will be invited for a post-conference monograph. This is traditionally published in the Springer series of Lecture Notes in Bioinformatics (LNBI), (arrangements undergoing). Continuing the tradition of CIBB, we are planning to publish best papers in one (or more, as appropriate) special issue of an international scientific journal (such as BMC Bioinformatics, in the latest editions). Paper Submission Papers must be prepared following the guidelines illustrated on the CIBB web site and should be long between 4 and 6 pages. Papers should be submitted in PDF format on the Easy Chair conference system (link available on the web site). Tutorials and Special Sessions CIBB 2016 will run a number of Tutorials and Special Sessions. Any topic of interest for the conference is eligible for a tutorial. Tutorials typically last from one to three hours. Special sessions focus on a specific, possibly cutting-edge, topic of interest for CIBB 2016. Special session organisers will be responsible for call dissemination, reviewing process and organizing oral presentations. Typically, a special session will have at least 4 accepted papers and may have an invited speaker (to be negotiated). Tutorial proposals including title, one page long abstract, and short CV of presenters, are due by 15th March 2014. Please send proposals to cibb2016(a)gmail.com. Special Session proposals including the session's title and scope, short CV of sessions chairs, preliminary list of at least 4 potential authors are due by 15th March 2014. Proposals of special sessions will be evaluated as soon as they are submitted. A special session must have at least 4 accepted papers. Please send proposals to cibb2016(a)gmail.com Important Dates Tutorial and Special Session proposal: 25th March 2016 Paper submission deadline: 15th May 2016 Notification of acceptance: 22nd June 2016 Final paper due: 8th July 2016 Conference: 1st -3rd September 2016 General Chairs Andrea Bracciali, University of Stirling, UK David Gilbert, Brunel University London, UK Gilbert MacKenzie, UL, ENSAI and Keele, UK Biostatistics Technical Chair Marco Bonetti, Università Bocconi, Italy Bioinformatics Technical Chair Ivan Merelli, ITB-CNR, Italy Local Organizing Committee Chairs Leslie Smith, University of Stirling, UK Giulio Caravagna, Edinburgh University, UK Publicity Chair Francesco Masulli, University of Genoa, Italy Special Session and Tutorial Chair Claudia Angelini, IAC-CNR, Italy Publication Chair Riccardo Rizzo, ICAR-CNR, Italy Steering Commitee Pierre Baldi, University of California, Irvine, CA, USA Elia Biganzoli, University of Milan, Italy Clelia Di Serio, Vita-Salute San Raffaele University, Italy Alexandru Floares, Oncological Institute Cluj-Napoca, Romania Jon Garibaldi, University of Nottingham, United Kingdom Nikola Kasabov, Auckland University of Technology, New Zealand Francesco Masulli, University of Genova, Italy and Temple University, PA, USA Leif Peterson, TMHRI, Houston, Texas, USA Roberto Tagliaferri, University of Salerno, Italy

March 14, 2016

PhD student position available at Newcastle University

by Roman Bauer

Dear all, I invite applications for a fully-funded three-year PhD student position at the Institute of Neuroscience at Newcastle University, Newcastle upon Tyne (UK). The successful candidate will work under the supervision of Dr Roman Bauer and Dr Evelyne Sernagor, and do computational modeling as well as wet-lab work on neuronal development in the retina. There is also the possibility for the student to be involved in a collaborative project with CERN openlab and Intel as a project partner. Applicants should be highly motivated and should have a strong background in physics, computer science, neuroscience or a related disciplince. Good computational skills and experience in a major programing language such as C++ or Java are required. The Institute of Neuroscience (IoN) is a well-established research institute integrating over 75 principal investigators, and was ranked in UK top 10 for overall quality of research. The university's Faculty of Medical Sciences, of which IoN is part of, is ranked in the top 50 worldwide for biomedical and health sciences in the Leiden Ranking. More details on this job posting can be found here: http://www.ncl.ac.uk/postgraduate/funding/sources/allstudents/12mrea.html Best regards, Roman Bauer

March 14, 2016

PostDoc position: developing computational models of optogenetic stimulation in epilepsy patients

by Marcus Kaiser

Dear all, a 3-year PostDoc position for developing computational models of optogenetic stimulation in epilepsy patients is available within my lab as part of the CANDO project at Newcastle University. *** About CANDO *** CANDO (Controlling Abnormal Network Dynamics using Optogenetics, http://www.cando.ac.uk/) is a world-class, multi-site, cross-disciplinary project to develop a cortical implant for optogenetic neural control. The goal is to create a first-in-human trial in patients with focal epilepsy. This seven year, £10M Innovative Engineering for Health Award, funded by the Wellcome Trust <http://www.wellcome.ac.uk/> and the Engineering and Physical Sciences Research Council (EPSRC) <http://www.epsrc.ac.uk/> involves a team of over 30 neuroscientists, engineers and clinicians based at Newcastle University <http://www.ncl.ac.uk/ion/>, Imperial College London <http://www3.imperial.ac.uk/electricalengineering>, University College London <https://www.ucl.ac.uk/medphys> and The Newcastle Hospitals NHS Foundation Trust <http://www.newcastle-hospitals.org.uk/>. *** Available RA position *** As part of this project, the lab of Prof. Marcus Kaiser ( http://www.dynamic-connectome.org/ ) is seeking a talented and enthusiastic research fellow with a PhD awarded, or a PhD thesis about to be submitted, in computational biology or related subjects. Objectives of this position are, first, to develop a detailed simulation of human brain activity at the local and global level of epilepsy patients. Second, the effect of stimulation on ongoing activity will be studied. Third, dynamical systems theory and extensive simulations will be used to find optimal stimulation approaches that can reach desired oscillation patterns with minimal stimulation. Simulations will be informed by invasive recordings and non-invasive brain connectivity measurements in human epilepsy patients. Good communication skills, very strong dynamics modelling skills, and a track record of previous peer-reviewed journal publications. You will have experience with modelling brain rhythms and dynamical systems. The position will include brief visits to our partners in the UK and abroad. *** Research Environment *** Neuroinformatics at Newcastle University in the UK covers a range of topics from electrophysiology to neuroimaging. We are among the pioneers in connectome analysis and the establishment of large-scale neuroscience data management and analysis platforms, e.g. through the £4m EPSRC-funded CARMEN project. Our strength is a close collaboration between computational, experimental, and clinical researchers. We currently have a team of 12 faculty members in the areas of Neuroinformatics and Neurotechnology which is growing to 15 members by the end of this year: http://neuroinformatics.ncl.ac.uk/ *** How to Apply *** To apply, follow the information at http://www.jobs.ac.uk/job/AUD320/research-assistant-associate-computational… The deadline is Thursday 7 April. For further information, contact Prof. Marcus Kaiser, Marcus.Kaiser(a)ncl.ac.uk Best, Marcus -- Marcus Kaiser, Ph.D. @ConnectomeLab <https://twitter.com/ConnectomeLab> Professor of Neuroinformatics Interdisciplinary Computing and Complex Biosystems (ICOS) Research Group School of Computing Science Newcastle University Claremont Tower Newcastle upon Tyne NE1 7RU, UK Lab website: http://www.dynamic-connectome.org/ Neuroinformatics@Newcastle: http://neuroinformatics.ncl.ac.uk/ -- Best, Marcus -- Marcus Kaiser, Ph.D. @ConnectomeLab <https://twitter.com/ConnectomeLab> Professor of Neuroinformatics Interdisciplinary Computing and Complex Biosystems (ICOS) Research Group School of Computing Science Newcastle University Claremont Tower Newcastle upon Tyne NE1 7RU, UK Lab website: http://www.dynamic-connectome.org/ Neuroinformatics@Newcastle: http://neuroinformatics.ncl.ac.uk

March 13, 2016

An Invitation and CfP for International Conference on Artificial Intelligence 2016 in Poland

by Grace Allas

CALL FOR PAPERS *** *All registered papers will be submitted to IEEE for potential inclusion to IEEE Xplore* AIPR2016 - The Third International Conference on Artificial Intelligence and Pattern Recognition Lodz University of Technology, Lodz, Poland September 19-21, 2016 http://sdiwc.net/conferences/aipr2016/ --------------------------------------------------- RESEARCH TOPICS ARE NOT LIMITED TO: • Agent-based Systems • AI and Evolutionary Algorithms • Ant Colony Optimization • Approximate Reasoning • Artificial Immune Systems • Artificial Intelligence in Modeling and Simulation • Artificial Intelligence in Scheduling and Optimization • Artificial Life • Automated Problem Solving • Bioinformatics and Computational Biology • Biometric Authentication • Brain-machine Interfaces • Camera Networks and Vision • Case Studies • Cognitive Systems and Applications • Collective Intelligence • Computer Vision • Data Mining • Decision Support Systems • Differential Evolution • Distributed AI Systems and Architectures • Emerging Technologies • Evolutionary Data Mining • Evolutionary Design • Evolutionary Scheduling • Expert Systems • Fuzzy Computing with Words • Fuzzy Control and Intelligent Systems • Fuzzy Decision Making and Decision Support Systems • Fuzzy Logic and Fuzzy Set Theory • Fuzzy Optimization and design • Fuzzy Pattern Recognition • Fuzzy Systems for Robotics • Game Theory • Hardware Implementations • Heuristic Searching Methods • Integration of AI With Other Technologies • Intelligent Agents • Intelligent Data Mining and Farming • Intelligent Databases • Intelligent Information Systems • Intelligent Networks • Intelligent Tutoring Systems • Intelligent User Interface • Intelligent Web-based Business • Knowledge Engineering • Knowledge Networks and Management • Knowledge-based Recognition • Knowledge-intensive Problem Solving Techniques • Machine Learning • Modeling and Identification • Molecular and Quantum Computing • Motion and Tracking Algorithms and Orientation Estimation • Multi-agent Systems • Multimedia Systems and Applications • Natural Language Processing • Neural Network Theory, Architectures and Applications • Novel Noise Reduction Algorithms • Particle Swarm Optimization • Printing Technologies • Robotics and Related Fields • Rough Sets and Rough Data Analysis • Segmentation Techniques • Signal and Speech Processing • Social Impact of AI • Software Tools for AI • Speech Understanding • Structural and Syntactic Pattern Recognition • Supervised and Unsupervised Learning • Type-2 Fuzzy Logic • Various Applications • Watermarking Methods and Protection • Web Intelligence ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ IMPORTANT DATES Submission Deadline : Open from now until August 19, 2016 Notification of Acceptance : 4-7 weeks from the submission date Camera Ready Submission : Open from now until September 09, 2016 Registration Deadline : Open from now until September 09, 2016 All the registered papers will be submitted to IEEE for potential inclusion to IEEE Xplore as well as other Abstracting and Indexing (A&I) databases. Paper Submission: http://sdiwc.net/conferences/aipr2016/openconf/openconf.php Write us for more details: aipr16(a)diwc.net NOTE: Please see other co-conferences: - The Third International Conference on Computer Science, Computer Engineering, and Education Technologies (CSCEET2016) http://sdiwc.net/conferences/csceet2016/ - The International Conference Numerical Methods and Applied Mathematics (NMAM2016) http://sdiwc.net/conferences/nmam2016/ ---------------------------------------

March 13, 2016

Ph.D. and PostDoctoral positions on Secure and Fault-Tolerant Implants (2nd call)

by C. Strydis

** Apologies if you receive multiple copies ** Dear colleagues, This is the 2nd call for new job postings in the field of secure and fault-tolerant implants: Our Neural Computing & Implants Lab (www.erasmusbrainproject.nl) of the Neuroscience Department of the Erasmus Medical Center, the Netherlands, is conducting research on next-generation implantable medical devices (IMDs). IMDs are resource-constrained embedded systems with unique functional and quality requirements. The overall objective of the research performed is to deliver techniques at the implant architecture, compiler, system and communication level for achieving by-design IMD security, privacy and fault tolerance. The selected candidates are expected to work on one or more of these intertwining subjects. This research will be part of the SHARCS Horizon 2020 EU-funded project (www.sharcs-project.eu) Collaborative partners are the Delft University of Technology, the Chalmers University of Technology and the National Technical University of Athens. The research group has a solid track record in contributing to design principles of high-performance and low-power embedded computing systems. Erasmus MC is a partner in the HiPEAC European Network of Excellence and an official collaborator in the H2020 Flagship: Human Brain Project (HBP - www.humanbrainproject.eu) Where HBP works on fully simulating the cerebral cortex, Erasmus MC is adding in accurate simulations of the cerebellar cortex. For more details please check the posting here: https://www.hipeac.net/jobs/9013/one-phd-position-and-one-postdoctoral-posi… We would appreciate if you could further disseminate our postings. Kind regards, Christos Strydis -- ============================== Christos Strydis, Ph.D. Assistant Professor Neuroscience Department Erasmus Medical Center Wytemaweg 80 (12th floor) Office Ee1210a 3015 CN Rotterdam Tel: +31 - 10 - 70 - 43294 Fax: +31 - 10 - 70 - 44734 E-mail: C.Strydis(a)erasmusmc.nl Web: www.erasmusbrainproject.com/index.php/strydis ==============================

March 13, 2016

Ph.D. and PostDoctoral positions on, High-Performance Brain Simulations (2nd call)

by C. Strydis

** Apologies if you receive multiple copies ** Dear colleagues, This is the 2nd call for new job postings in the field of High-Performance Brain Simulations: Our Neural Computing & Implants Lab group (www.erasmusbrainproject.nl) of the Neuroscience Department of the Erasmus Medical Center, the Netherlands, is conducting research on high-performance, large-scale simulations of the human cerebellum. Depending on the neuronal-network size and the modeling accuracy desired, brain-model simulations can rapidly grow to be become exascale order-of-magnitude applications for HPC platforms. By capitalizing on the long-standing expertise and track record of the Neuroscience Department, the overall objective of the research performed is dual: to re-construct in hardware (''in silico'') the human cerebellar cortex and -- in the process -- to develop novel tools for the automatic, seamless and fast simulation of any brain-model ensembles on popular HPC platforms, such as FPGAs, NVidia GP-GPUs, Intel Xeon Phis and Maxeler Dataflow Engines. The selected candidates are expected to work on these topics. This research will be part of the VINEYARD Horizon 2020 EU-funded project (www.vineyard-h2020.eu) Erasmus MC is a partner in the HiPEAC European Network of Excellence and an official collaborator in the H2020 Flagship: Human Brain Project (HBP - www.humanbrainproject.eu) Where HBP works on fully simulating the cerebral cortex, Erasmus MC is adding in accurate simulations of the cerebellar cortex. Collaborative partners are the Delft University of Technology, the Chalmers University of Technology and the National Technical University of Athens. For more details please check the posting here: https://www.hipeac.net/jobs/9011/one-phd-position-and-one-postdoctoral-posi… We would appreciate if you could further disseminate our postings. Kind regards, Christos Strydis -- ============================== Christos Strydis, Ph.D. Assistant Professor Neuroscience Department Erasmus Medical Center Wytemaweg 80 (12th floor) Office Ee1210a 3015 CN Rotterdam Tel: +31 - 10 - 70 - 43294 Fax: +31 - 10 - 70 - 44734 E-mail: C.Strydis(a)erasmusmc.nl Web: www.erasmusbrainproject.com/index.php/strydis ==============================

March 13, 2016

Research Experience for Undergraduates (REU), Summer 2016

by Alexey Kuznetsov

The Department of Mathematical Sciences at Indiana University-Purdue University Indianapolis is currently recruiting students for a Research Experience for Undergraduates (REU) titled, "IUPUI REU Program in mathematics with applications to medical sciences, biophysics, and inverse problems." Eight undergraduate students will be accepted into the NSF-funded program for Summer 2016. Students may submit applications at the following website: math.iupui.edu/reu. -- Alexey Kuznetsov Associate Professor Dept. of Mathematical Sciences, IUPUI Science Building, LD 270, 402 N. Blackford St., Indianapolis, IN

March 11, 2016

[visum2016] Summer School :: (last) Call for participation!

by Ricardo Sousa

Call for Participation 4th VISion Understanding and Machine intelligence summer school Porto, Portugal 7-14 July, 2016 http://www.fe.up.pt/visum/ |Facebook: http://goo.gl/FbVNtq We invite everyone with interests in computer vision to attend the 4th *VISion Understanding and Machine intelligence summer school, *at ATMOSFERA M in Porto, Portugal. At visum you can find an expert multicultural environment, aiming to foster junior researchers’ awareness of computer vision topics, as well as to enhance all attendees’ knowledge regarding the state of the art, provided by leading international experts on the field. Being an area of great potential in industrial applications with a strong increase in the number of researchers in these last years, *visum* summer school will be an incredible opportunity. Important Dates Application March, 21 Notification of Acceptance March, 25 Early Registration April, 22 Late Registration May, 13 Scholarships *In partnership with APRP, we will provide a grant that covers the registration for an APRP member. Grant will be given according to the relevance of the applicant’s CV. Visum will comprise three main tracks 1. Fundamental subjects 2. Examples of computer vision applications 3. Industrial session Each one with extensive practical “hands-on” sessions *Topics* Biometrics Julian Fierrez Universidad Autónoma de Madrid ES Structure From Motion João Paulo Costeira Instituto Superior Técnico PT Document Image Analysis Alicia Fornes Universitat Autònoma de Barcelona ES Human Activity Hatice Gunes University of Cambridge UK Deep Learning Dan Ciresan Dalle Molle Institute for Artificial Intelligence CH Modelling and Simulation Mauricio Reyes University of Bern CH *Applications* To be announced Industry Track EyeSee Follow Inspiration Movvo Venue visum will take place at ATMOSFERA M, Rua Júlio Dinis, nº 158/160, Porto, Portugal. Location visum will take place in Porto, Portugal’s second-largest city, European Best Destination 2012 and Lonely Planet’s top 10 for 2013. Here, you can find famous baroque style monuments, the worldwide known Port Wine cellars, always having the World Heritage Douro River as the background of this youthful, active and charming city. visum’s program includes social activities. Please visit our webpage for up to date information: http://www.fe.up.pt/visum/. We are looking forward for your participation! *visum organising committee* Ana Rebelo, INESC TEC, Universidade do Porto Eduardo M. Pereira, INESC TEC, Faculdade de Engenharia da Universidade do Porto Hélder P. Oliveira, INESC TEC, Universidade do Porto Kelwin Fernandes, INESC TEC, Faculdade de Engenharia da Universidade do Porto Luís F. Teixeira, INESC TEC, Faculdade de Engenharia da Universidade do Porto Pedro Ferreira, INESC TEC, Faculdade de Engenharia da Universidade do Porto Tiago Esteves, INEB, Faculdade de Engenharia da Universidade do Porto *Follow us on:* Facebook: http://www.facebook.com/pages/visum/402527539813446 Google+: https://plus.google.com/104076275960053201744/posts Twitter: http://www.twitter.com/visumschool __ Ricardo Sousa, PhDhttp://rsousa.orghttps://www.linkedin.com/in/rsousa email: rsousa _at_ rsousa.org

March 11, 2016

CoSMo 2016 - FREE participation!

by Gunnar Blohm

It is our pleasure to announce that thanks to external funding from NIH and Brain Canada, *CoSMo 2016 attendance will be free of charge*! In addition, a limited number of travel scholarships will be available. *Application deadline: Apr 11, 2016* For more information and to apply, please go to <http://www.compneurosci.com/CoSMo/>http://www.compneurosci.com/CoSMo/ Scholarship information and the application form can be found here: http://www.compneurosci.com/CoSMo/application.html Best, Gunnar Blohm, Paul Schrater, and Konrad Körding -- ------------------------------------------------------- Dr. Gunnar BLOHM Associate Professor in Computational Neuroscience Association for Canadian Neuroinformatics and Computational Neuroscience (CNCN) Centre for Neuroscience Studies, Departments of Biomedical and Molecular Sciences, Mathematics & Statistics, and Psychology, School of Computing, and Canadian Action and Perception Network (CAPnet) Queen’s University 18, Stuart Street Kingston, Ontario, Canada, K7L 3N6 Tel: (613) 533-3385 Fax: (613) 533-6840 Email: Gunnar.Blohm(a)QueensU.ca Web: http://www.compneurosci.com/

March 10, 2016