- Comp-neuro - lists.cnsorg.org

Open PhD Position at the University of Exeter, UK - Modelling visuomotor coordination in People with Parkinson’s Disease
by Tsaneva-Atanasova, Krasimira April 18, 2016

April 18, 2016

I have an open PhD Positions in my group at the University of Exeter. I am looking for PhD students with quantitative background (mathematics, physics, computer science or engineering) who are interested in applying their skills in solving biomedical and/or healthcare problems. Carlota Palmer Studentships: 2. Modelling visuomotor coordination in People with Parkinson’s Disease For further details and how to apply see: http://www.exeter.ac.uk/studying/funding/award/?id=2159<http://www.exeter.ac.uk/studying/funding/award/?id=2122> Please feel free to contact me if you have any questions regarding these positions. Krasimira Tsaneva-Atanasova Professor of Mathematics for Healthcare College of Engineering, Mathematics and Physical Sciences University of Exeter Exeter, Devon, EX4 4QF, UK tel: +44 (0) 1392 723615 email: k.tsaneva-atanasova(a)exeter.ac.uk<mailto:k.tsaneva-atanasova@exeter.ac.uk> web: http://emps.exeter.ac.uk/mathematics/staff/kt298 ALTEREGO - Enhancing Social Interaction with an AlterEgo artificial agent http://www.euromov.eu/alterego/homepage

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Postdoctoral and Developer positions / Large-scale network simulator development
by Hans Ekkehard Plesser April 18, 2016

April 18, 2016

Dear Colleagues! The computational neuroscience group at the Norwegian University of Life Sciences is currently recruiting one postdoctoral-level researcher and one scientific software developer as part of our large-scale neuronal network simulator development efforts in the Human Brain Project (HBP). Our group is responsible for four tasks in the next phase of the HBP: - Massively parallel methods for network construction from rules and data - Whole brain level in silico instrumentation, services and apps - Models of brain signals - Simulator NEST as a Service Your work will focus on the first two tasks, researching concepts required to compactly specify brain-scale neuronal networks so that they are easy for the neuroscientist to review, and at the same time can be instantiated efficiently in a massively parallel fashion. You will further work on concepts that will allow domain specialists to configure complete in silico experiments on point-neuron-based whole-brain models by connecting stimulation and recording devices to specific neuron populations. We will collaborate closely with colleagues within the HBP, especially at the Institute for Neuroscience and Medicine 6, Research Center Jülich (FZJ), at the Swiss Federal Institute of Technology in Lausanne (EPFL), and at University of Oslo. Our group is a core member of the NEST Initiative. We have access to some of the world's largest supercomputers and aim to develop simulation technology that will scale to the exascale. Preferred starting date for the positions is 1 August 2016 for a period of 20 months (until 31 March 2018). For details on the positions, please see the full advertisements at https://www.jobbnorge.no/ledige-stillinger/stilling/124473/researcher-in-ne… https://www.jobbnorge.no/ledige-stillinger/stilling/124558/head-engineer-se… where you also can submit your application. For general information about working in Norway, please see https://www.nav.no/workinnorway/ Please feel free to contact me if you are interested in the positions! Hans Ekkehard Plesser -- Dr. Hans Ekkehard Plesser, Associate Professor Section Head Dept. of Mathematical Sciences and Technology Norwegian University of Life Sciences PO Box 5003, 1432 Aas, Norway Phone +47 6723 1560 Email hans.ekkehard.plesser(a)nmbu.no Home http://arken.umb.no/~plesser

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[IEEE ICCI*CC'16:] Final call for Submission: Computational Intelligence/Cognitive Informatics/Cognitive Computing @Stanford
by Yingxu Wang April 18, 2016

April 18, 2016

Dear Colleagues, The deadline for paper submission to IEEE ICCI'CC’16 (15th IEEE International Conference on Cognitive Informatics & Cognitive Computing) is April 30, 2016 (http://www.ucalgary.ca/icci_cc/iccicc-16) The Proceedings of ICCI*CC'16 will be published by IEEE CS Press. Papers accepted in ICCI*CC’16 will be indexed by EI. Extended versions of selected papers will be published in several EI or SCI indexed journals. Full papers are expected to be around 5-8 pages in IEEE double column format. Short papers (3-4 pages) that report industrial experience, case studies, work in progress, or graduate students’ research are also welcome. Paper submission site is at: https://easychair.org/conferences/?conf=iccicc2016. The conference will be featured by four keynote speeches such as those of: * Prof. Lotfi A. Zadeh with UC Berkeley * Prof. Bernard Widrow with Stanford University The keynotes highlight cutting-edge theories and novel technologies for cognitive systems and computational intelligence inspired by the brain. We look forward to meeting you at Stanford University during Aug. 22-23, 2016. Sincerely, IEEE ICCI*CC'16 Co-Chairs GENERAL CO-CHAIRS: Bernard Widrow (Stanford) and Yingxu Wang (UofC, Canada) PROGRAM CO-CHAIRS: Newton Howard (MIT) and Kostas Plataniotis (Univ. of Toronto, Canada)_______________________________________________ This message was sent to all subscribers of ieeeicci13-L To unsubscribe, see instructions at: http://www.ucalgary.ca/it/email/mailman E-mail: ieeeicci13-L(a)mailman.ucalgary.ca Homepage: http://mailman.ucalgary.ca/mailman/listinfo/ieeeicci13-l

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PhD position: neuronal self-organization in the retina
by Roman Bauer April 16, 2016

April 16, 2016

Dear all, applications are invited 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 and self-organization 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. UK/EU and International students are eligible to apply, but international students will be required to make up the difference between the UK/EU fees and international fees. The deadline is May 13th, 2016. 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

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Call for Abstracts at NTS Conference, Deadline April 29, 2016
by Camille Grigsby-Rocca April 15, 2016

April 15, 2016

Dear Colleagues, The Scientific Committee of Neuromodulation: The Science Conference is pleased to announce an extension to the conference Call for Abstracts, now due April 29, 2016, for our upcoming neuroscience summit, slated for May 25-29, 2016 in San Francisco. Submissions are open for the Neurovations Awards for Best Posters in Neuromodulation at NTS Conference, for abstracts presenting original basic or clinical scientific research or updates in brain/computer/machine interfacing, biomedical engineering, neuroscience and neuromodulation. See the Abstract Submission Guidelines here<http://ntsconference.com/neurovations-award/>. The top three posters from all specialties including brain/computer/maching interfacing, bioengineering, neuromodulation and neuroscience will win an award for scientific excellence, which will be presented on the final day of the conference. Prizes to the top three posters selected will be awarded in amounts of $3000, $2000, and $1000, respectively. All posters must be attended by a registered attendee of the conference. View the program at ntsconference.com<http://ntsconference.com/> - conference co-chairs Elliot Krames, MD, Eric Grigsby, MD, MBA and Peter Staats, MD, with the support of the Conference Scientific Committee have designed five days of world-class scientific content. The program includes lectures and Q&A panels, led by over 60 of the world's preeminent scientists in brain/computer/machine interfacing, neuromodulation, optogenetics, bioengineering, functional electrical stimulation (FES), spinal cord stimulation (SCS), and more. Early registration rates are available through April 21. Discounted lodging rates at the Hyatt Regency Embarcadero, San Francisco, are available until April 29. Abstracts will be accepted through April 29. CME credits are available, with 18.50 AMA PRA Category 1 Credits(tm). VIEW THE FULL PROGRAM HERE<http://ntsconference.com/wp-content/uploads/2015/04/NTS_agenda_040516.pdf>. ________________________________ This activity has been planned and implemented in accordance with the accreditation requirements and policies of the Accreditation Council for Continuing Medical Education (ACCME) through joint providership of SpectrumCare and Neurovations Education. SpectrumCare is accredited by the ACCME to provide continuing medical education for physicians. SpectrumCare designates this live activity for a maximum of 18.5 AMA PRA Category 1 Credits(tm). Physicians should claim only the credit commensurate with the extent of their participation in the activity. ________________________________ SCIENTIFIC COMMITTEE Elliot Krames, MD Past President INS, Founding Editor of Neuromodulation Eric Grigsby, MD, MBA CEO, Neurovations Clinical Research and Education Founder, Napa Pain Institute, the SpectrumCare Group Peter Staats, MD Premier Pain Centers, Past President, NANS Joe Pancrazio, PhD Associate Provost and Professor of Biomedical Engineering at University of Texas at Dallas Hunter Peckham, PhD Professor Biomedical Engineering, Case Western Reserve University Dominique Durand, PhD El Lindseth Professor of Biomedical Engineering, Case Western Reserve Universtiy Magdy Hassouna, MD, PhD Department of Urology, University of Toronto Ali Rezai, MD Director, OSU Neuroscience Program, Stanley and Jodi Ross Chair in Neuromodulation, Associate Dean of Neurosciences, Professor of Neurosurgery and Neuroscience Robert Gross, MD, PhD Professor, Departments of Neurosurgery, Neurology, Biomedical Engineering, and Neuroscience,Director, Functional, Stereotactic & Epilepsy Surgery Division Tony Yaksh, PhD Distinguished Professor in Anesthesiology and Pharmacology and Vice Chairman for Research in Anesthesiology(1988-present), Co-director of the Pain and Symptom Management Core of the UCSD Regional Cancer Center Chad Bouton, MS Division Leader, Neurotechnology and Analytics, The Feinstein Institute for Medical Research, Managing Director, Center for Bioelectronic Medicine Simon Thomson, MD Past President, INS Bengt Linderoth, MD, PhD Professor of Neurosurgery, retired, Karolinska Institute Robert Foreman, PhD George Lynn Cross Research Professor, University of Oklahoma, Dept of Physiology, retired Michael DeJongste, MD, PhD Faculty of Medical Sciences, Dept of Cardiology, University of Groningen Jiande Chen, PhD Professor of Medicine and Professor of Biomedical Engineering, Johns Hopkins University

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Deadline April 30 for Berkeley summer course in mining and modeling of neuroscience data
by Friedrich Sommer April 13, 2016

April 13, 2016

Just a reminder: The application deadline for the Berkeley course in mining and modeling of neuroscience data, held July 11-22, 2016 is April 30 midnight. Call for applications: We invite applicants to the 2016 summer course in "Mining and modeling of neuroscience data" to be held July 11-22, 2016 at UC Berkeley. A description of the course is below and also at: http://crcns.org/course Berkeley summer course in mining and modeling of neuroscience data. July 11-22, 2016 Redwood Center for Theoretical Neuroscience, UC Berkeley Organizers: Fritz Sommer, Bruno Olshausen & Jeff Teeters (HWNI, UC Berkeley) Scope This course is for students and researchers with backgrounds in mathematics and computational sciences who are interested in applying their skills toward problems in neuroscience. It will introduce the major open questions of neuroscience and teach state-of–the-art techniques for analyzing and modeling neuroscience data sets. The course is designed for students at the graduate level and researchers with background in a quantitative field such as engineering, mathematics, physics or computer science who may or may not have a specific neuroscience background. The goal of this summer course is to help researchers find new exciting research areas and at the same time to strengthen quantitative expertise in the field of neuroscience. The course is sponsored by the National Institute of Health, the National Science Foundation from a grant supporting activities at the data sharing repository CRCNS.org, and the Helen Wills Neuroscience Institute at UC Berkeley. Format The course is “hands on” in that it will include exercises in how to use and modify existing software tools and apply them to data sets, such as those available in the CRCNS.org repository. Course Instructors Robert Kass, Carnegie Mellon University, Pittsburgh Maneesh Sahani, Gatsby Unit, University College London Odelia Schwartz, University of Miami Frederic Theunissen, University of California Berkeley Joshua Vogelstein, Johns Hopkins University Course Moderators Fritz Sommer and Jeff Teeters, Redwood Center for Theoretical Neuroscience. Speakers To complement the main course instruction there will be lectures in the evenings by local Berkeley and UCSF neuroscientists presenting their research using quantitative approaches. Requirements Applicants should be familiar with linear algebra, probability, differential and integral calculus and have some experience using MatLab and Python. Each student should bring a laptop with both MatLab and Python installed. Cost There is no cost to attend. Non-local attendees will be reimbursed for economy travel expenses (up to a maximum, probably about $500) and also for qualifying food expenses if receipts are provided. Housing Rooms in a nearby hotel will be provided for those attendees who need accommodations. Food Breakfast and some dinners will be provided to all participants as a group. Non-local attendees can purchase food at local stores or restaurants and be reimbursed. How to apply To apply, submit the online form linked from: http://crcns.org/course. A curriculum vitae and a letter of recommendation are required. The course is limited to 25 students. Deadlines Applications must be received by the end of April. Notifications of acceptance will be given by May 15. Questions Questions about the course can be sent to course [at] crcns.org. Topics covered (subject to change): Basic approaches: - The problem of neural coding - Spike trains, point processes, and firing rate - Statistical thinking in neuroscience - Theory of model fitting / regularization / hypothesis testing - Overview of stimulus-response function models - Theory of model fitting / regularization / hypothesis testing - Bayesian methods - Spike sorting - Estimation of stimulus-response functionals: regression methods, spike-triggered covariance, - Variance analysis of neural response - Estimation of SNR. Coherence Information theoretic approaches: - Information transmission rates - Scene statistics approaches and neural modeling Techniques for analyzing multiple-electrode and optical neural recordings: - Event sorting in electrophysiology and optical imaging - Optophysiology cell detection - Sparse coding/ICA methods, vanilla and methods including statistical models of nonlinear dependencies - Methods for assessing functional connectivity - Statistical issues in network identification - Low-dimensional latent dynamical structure in network activity–Gaussian process factor analysis/newer methods Analyzing structural data: - Histology cell detection - Statistical connectomics Neuroinformatics topics: - Petascale data storage, exploration, parsing and analysis - Introduction into Neurodata Without Borders data format for Neurophysiology

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Postdoctoral position: computational neuroscience in NYU
by Chen, Zhe April 13, 2016

April 13, 2016

Dear colleagues, Applications are now being accepted for a postdoctoral fellow position to combine computational and experimental techniques to study neural mechanisms of thalamus-neocortical circuits using healthy or diseased rodent models (1-4). The applicant will work closely with Dr. Zhe (Sage) Chen and Dr. Mike Halassa at the New York University School of Medicine, with cross-disciplinary training in computational and systems neuroscience, including rodent behavior and electrophysiology. The applicant will have great opportunities to interact with a large and growing neuroscience community at the NYU campus, including the Neuroscience Institute (http://neuroscience.med.nyu.edu<http://neuroscience.med.nyu.edu/>), Center for Neural Science (http://www.cns.nyu.edu<http://www.cns.nyu.edu/>), Department of Neuroscience & Physiology (http://neuro-physio.med.nyu.edu<http://neuro-physio.med.nyu.edu/>), and Department of Psychiatry (http://psych.med.nyu.edu<http://psych.med.nyu.edu/>). NYU Neuroscience community is also surrounded by other institutions in the greater New York metropolitan area (such as Columbia, Cornell, Rockefeller and Mount Sinai). The postdoc position is available immediately, and will be renewable depending on performance. Applications must have a PhD degree in Neuroscience, Engineering (Biomedical or Electrical), Statistics, Physics or a related discipline. The desired applicant is expected to be highly motivated and work independently as well as cooperatively with other colleagues in all research projects. Ability to learn new techniques and resolve new research challenges is essential. Strong experiences in large-scale computational (biophysical and statistical) modeling of neural circuits are desired. Previous training in some but not necessary all areas, such as animal behavior and optogenetics, in vivo neural recordings at the system levels, are preferred. Research experience with multi-electrode recordings of rodent neural circuits is a plus. To apply, please send an email along with (i) CV (with a complete list of publications); (ii) a cover letter describing research accomplishments and interests; (iii) the names and contact information of two to three references to: Dr. Zhe (Sage) Chen (zhe.chen3(a)nyumc.org<mailto:zhe.chen3@nyumc.org>) or Dr. Mike Halassa (Michael.halassa(a)nyumc.org<mailto:Michael.halassa@nyumc.org>) with a subject line “Postdoc application”. Best Zhe (Sage) Chen Related references: 1. Halassa, M.M., Chen, Z., Wimmer, R.D., Brunetti, P.M., Zhao, S., Zikopoulos, B., Wang, F., Brown, E.N., Wilson, M.A. (2014) State-dependent architecture of thalamic reticular sub-networks. Cell, 158: 808-824. 2. Chen, Z., Wimmer, R.D., Wilson, M.A., Halassa, M.M. (2015) Thalamic circuit mechanisms link sensory processing in sleep and attention. Front. Neural Circuits, 9:83. 3. Wimmer, R.D., Schmitt, L.I., Davidson, T.J., Nakajima, M., Deisseroth, K.,Halassa, M.M. (2015) Thalamic control of sensory selection in divided attention. Nature, 526: 705–709, DOI: 10.1038/nature15398. 4. Wells, M.F., Wimmer, R.D., Schmitt, L.I., Feng, G., Halassa, M.M. (2016) Thalamic reticular impairment underlies attention deficit in Ptchd1Y/- mice. Nature, 532: 58-63, DOI: 10.1038/nature17427. ------------------------------------------------------------ This email message, including any attachments, is for the sole use of the intended recipient(s) and may contain information that is proprietary, confidential, and exempt from disclosure under applicable law. Any unauthorized review, use, disclosure, or distribution is prohibited. If you have received this email in error please notify the sender by return email and delete the original message. Please note, the recipient should check this email and any attachments for the presence of viruses. The organization accepts no liability for any damage caused by any virus transmitted by this email. =================================

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CFP- Frontiers Research Topic: Cortico-striato-nigro-thalamo-cortical Modeling for Understanding Motor Function and Neurodegenerative Disease
by Zheng April 13, 2016

April 13, 2016

To whom it may concern: In collaboration with Frontiers in Computational Neuroscience, we are organizing a Research Topic titled "Cortico-striato-nigro-thalamo-cortical Modeling for Understanding Motor Function and Neurodegenerative Disease”, hosted by Pengsheng Zheng, James Kozloski, Timothy Rumbell, George V. Rebec. As host editor, I would like to encourage you to contribute to this topic. Please find more information about Research Topics below, including the publishing fees that apply. You can also visit the homepage we have created on the Frontiers website, which defines the focus of the topic, and where all published articles will appear. http://frontiersin.org/Computational_Neuroscience/researchtopics/Cortico-st… Movement in the body is directly controlled by motor cortex, and also determined by multiple subcortical structures, such as thalamus and the basal ganglia (including striatum and dopamine neurons in the substantia nigra). Many lines of evidence have suggested the cortico-striato-nigro-thalamo-cortical circuitry plays a major role in motor learning and control. This circuitry has also been investigated for its causal role in the onset and progression of neurodegenerative diseases. Neurodegenerative diseases are often associated with movement disorders and neuronal dysfunction in degenerated brain structures, such as the striatum in Huntington’s disease and dopaminergic neurons in the substantia nigra pars compacta in Parkinson's disease. Degeneration fundamentally changes the dynamics of local neuronal circuits, and these changes then propagate through the structural connectome of whole brain circuitry, eventually altering global brain dynamics. However, our current understanding of these system dynamics in the cortico-striato-nigro-thalamo-cortical circuitry remains rudimentary. Hence, theoretical studies about critical system variables and computational principles of this circuitry, constrained by recordings throughout, will shed new light on causes of motor dysfunction and neurodegenerative diseases. This Research Topic of Frontiers in Computational Neuroscience aims to bring together recent advances in theoretical modeling of cortico-striato-nigro-thalamo-cortical network and experimental observations. Topics of interest include, but are not limited to, local brain circuit modeling, the functional role of neuronal plasticity in the local and global circuit, global circuit interactions and information exchange, new models validated by experimental observations, and dynamic disease risk analysis through perturbation studies. Best regards, Pengsheng Zheng zhengp(a)us.ibm.com <mailto:zhengp@us.ibm.com> T.J. Watson Research Center 1101 Kitchawan Rd., 13-114A Yorktown Heights, NY 10598

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Summer School "Advanced Scientific Programming in Python" in Reading, UK, September 5--11, 2016
by Etienne B. Roesch April 13, 2016

April 13, 2016

*Advanced Scientific Programming in Python* a Summer School by the G-Node, and the Centre for Integrative Neuroscience and Neurodynamics, School of Psychology and Clinical Language Sciences, University of Reading, UK 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 Mathematica 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. You can apply online: https://python.g-node.org *Application deadline: 23:59 UTC, May 15, 2016. Be sure to read the FAQ before applying. * Participation is for free, i.e. no fee is charged! Participants however should take care of travel, living, and accommodation expenses by themselves. Travel grants may be available. *Date & Location * September 5—11, 2016. Reading, UK *Program * - Best Programming Practices • Best practices for scientific programming • Version control with git and how to contribute to open source projects with GitHub • Best practices in data visualization - Software Carpentry • Test-driven development • Debugging with a debugger • Profiling code - Scientific Tools for Python • Advanced NumPy - Advanced Python • Decorators • Context managers • Generators - The Quest for Speed • Writing parallel applications • Interfacing to C with Cython • Memory-bound problems and memory profiling • Data containers: storage and fast access to large data - Practical Software Development • Group project *Preliminary Faculty * • Francesc Alted, freelance consultant, author of PyTables, Spain • Pietro Berkes, Enthought Inc., Cambridge, UK • Zbigniew Jędrzejewski-Szmek, Krasnow Institute, George Mason University, Fairfax, VA, USA • Eilif Muller, Blue Brain Project, École Polytechnique Fédérale de Lausanne, Switzerland • Juan Nunez-Iglesias, Victorian Life Sciences Computation Initiative, University of Melbourne, Australia • Rike-Benjamin Schuppner, Institute for Theoretical Biology, Humboldt-Universität zu Berlin, Germany • Bartosz Teleńczuk, European Institute for Theoretical Neuroscience, CNRS, Paris, France • Stéfan van der Walt, Berkeley Institute for Data Science, UC Berkeley, CA, USA • Nelle Varoquaux, Centre for Computational Biology Mines ParisTech, Institut Curie, U900 INSERM, Paris, France • Tiziano Zito, freelance consultant, Germany *Organizers * For the German Neuroinformatics Node of the INCF (G-Node) Germany: • Tiziano Zito, freelance consultant, Germany • Zbigniew Jędrzejewski-Szmek, Krasnow Institute, George Mason University, Fairfax, USA • Jakob Jordan, Institute of Neuroscience and Medicine (INM-6), Forschungszentrum Jülich GmbH, Germany For the Centre for Integrative Neuroscience and Neurodynamics, School of Psychology and Clinical Language Sciences, University of Reading UK: • Etienne Roesch, Centre for Integrative Neuroscience and Neurodynamics, University of Reading, UK *Website*: https://python.g-node.org *Contact*: python-info(a)g-node.org Kind regards, Etienne ----- Dr. Etienne B. Roesch Lecturer in Cognitive Science University of Reading

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Early Career Research Fellowship in Systems Biology / Machine Learning for Food and Disease
by Steuber, Volker April 13, 2016

April 13, 2016

Early Career Research Fellowship in Systems Biology / Machine Learning for Food and Disease Closing date: 17 May 2016 Salary: £31,656 - £37,768 per annum depending on skills and experience. The University of Hertfordshire is investing in its future research staff and infrastructure, and is in the process of transitioning the delivery of its research under six Themes: Food; Global Economy; Health and Wellbeing; Heritage, Cultures and Communities; Information and Security; Space. These will assist in the further development of research excellence and provide both increased external profile and internal focus for Hertfordshire’s research activities. Six new Research Fellow posts are each offered for a five year term in the first instance. It is our expectation, however, that successful appointees will grow their research activities to become permanent academic staff members by the end of that period. Further particulars for the ECRF in Systems Biology / Machine Learning for Food and Disease Qualifications required: You must have a first degree in a science, such as biology, computer science, mathematics or a relevant subject, and a doctoral degree in bioinformatics, machine learning, quantitative genetics or a related subject area. Experience in systems biology, big data science or genomics will be particularly relevant. Research focus and environment: This Fellowship will focus on emerging methods in biocomputation that generate and exploit large data sets of biological information available from genomics, transcriptomics, proteomics and metabolomics to better understand mechanisms of host resistance/immunity and/or resistance breakdown. The Fellow will generate an improved understanding of relevant biological systems to develop specific strategies to combat infectious diseases caused by plant, animal or human pathogens. This Fellowship will be supported by existing collaborations between colleagues in Schools of Life & Medical Sciences (Kukol, Stotz, Barling, Fitt) and Computer Science (Steuber). The Fellow is expected to use the University’s high performance computer cluster. Experience and skills required for the post (i) Considerable experience with big data analysis and machine learning, including working knowledge of scripting languages like Perl, Python and/or R; (ii) Knowledge of genomic research techniques, such as next-generation sequencing, proteomics and/or metabolic profiling; (iii) Practical experience with the application of numerical analysis and/or mathematical models to biological datasets, for example in genomics or quantitative genetics; (iv) Evidence of original research published in high impact journals. Research expectations The Fellow is expected to develop a collaborative research program with our academic partners. We envisage that the Research Fellow will become a permanent staff member, supported by funding from successful research grant applications and developing new areas of teaching, especially at the post-graduate level. To ensure this, the two Schools will provide career training for the Fellow. The Fellow will have established collaborations with companies and successfully obtained co-funded industry-government projects. The Fellow will continue to publish high-impact papers and be leading an internationally recognised research team. Description of the Schools: The Early Career Research Fellow will work with and receive support from the School of Life and Medical Sciences and the School of Computer Science. The successful candidate can build on the strengths of both Schools and may combine experiment-based empirical research with data-based analysis. Within the School of Life and Medical Sciences (http://www.herts.ac.uk/apply/schools-of-study/life-and-medical-sciences/res…) the Centre for Agriculture, Food and Environmental Management (CAFEM) is a research and teaching collaboration with the Royal Veterinary College, Rothamsted Research and Oaklands College. The Fellow will work with researchers in CAFEM who have experience with systems biology applicable to crop protection, combining experimental field and lab research with computational modelling. Within the School of Computer Science, research in the Biocomputation Research Group (http://biocomputation.herts.ac.uk/) involves development of computational models to study biological systems and application of biologically-inspired machine learning algorithms for the analysis of "real-world" data. Members of the Biocomputation Group analyse and simulate computational models at different levels of complexity and collaborate closely with leading experimentalists in the UK and abroad. Informal enquiries are encouraged and should be made to Professor Bruce Fitt, Professor of Plant Pathology, email: b.fitt(a)herts.ac.uk / Tel + 44 (0)1707 284751 or Dr Volker Steuber, Reader in Biocomputation and Head of the Biocomputation Research Group, email: v.steuber(a)herts.ac.uk / Tel: +44 (0)1707 284350. Applications should be made through http://www.herts.ac.uk/contact-us/jobs-and-vacancies/research-vacancies, job reference 013457.

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