ynic-users

ynic-users@ynic.york.ac.uk

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2771 discussions

by Paul Elliott

Hi all, Debian, who provide the base operating system that we use at YNiC, recently announced[1] that the Chromium web browser will no longer receive security updates. As a result we will be removing the Chromium browser from all our systems on Friday next week (27th March) so that we're not left exposed to security problems with Chromium. Anyone using Chromium at YNiC should switch to Iceweasel (a rebranded Firefox browser) as this will continue to receive security updates. If you have any bookmarks in Chromium that you would like to save please follow the steps below: * Run Chromium and press CONTROL+SHIFT+O to bring up the bookmark manager. * Click on the Organize button and choose 'Export bookmarks to HTML file...' * Choose a sensible filename and click the save button. * Close Chromium and open Iceweasel. * Press CONTROL+SHIFT+O to bring up the library window. * Click the 'Import and Backup' button and select 'Import Bookmarks from HTML...' * Choose the file saved in the previous step and click the Open button. All your bookmarks from Chromium will now be saved in Iceweasel. If you have any problems saving your bookmarks or if you have a use case that Iceweasel fails to satisfy please let us know by e-mailing it-support(a)ynic.york.ac.uk as soon as possible. Thanks, Paul. [1] https://lists.debian.org/debian-security-announce/2015/msg00031.html -- Paul Elliott, UNIX Systems Administrator York Neuroimaging Centre (YNiC), University of York

10 years, 1 month

YNiC seminar today

by rem

Dear Users This afternoon (from 4 pm in B020), there will be two internal project proposal presentations from Jonny Smallwood's group: * 1) Differences between the Default Mode Network's activity during self-relevant and not-self-relevant memory formation * Irene de Caso *2) Window to the wandering mind - an fMRI investigation on the role of pupil dilation in the occurrence of self-generated thought* Mahiko Konishi Abstract Occurrences of mind-wandering, i.e. shifting our attention from the external environment to our self-generated thoughts, are spontaneous, dynamic experiences that clearly illustrate the fleeting identity of consciousness. Due to its subjective nature, first-person point of view measures like self-reports and experience sampling, such as stopping a participant in the middle of a task and asking him if he was focused on the task or distracted, have long been the state of the art for the study of self-generated thought. These methods, while managing to capture instances of this experience, lack of a way to objectively gauge occurrences of self-generated thought from a second- or third-person point of view without disrupting the experience itself. As there is previous evidence that pupil dilation tracks fluctuations in mind wandering and that these are also linked at a neural level with the activation of the Default Mode Network, we aim to bring the two methods together in order to triangulate (with the help of experience sampling) the temporal dynamics of self-generated thought. Everyone is welcome to attend and refreshments will be available after the seminar. Best wishes Rebecca -- ************************************************************************ Dr. Rebecca E. Millman Science Liaison Officer York Neuroimaging Centre The Biocentre York Science Park Heslington YO10 5DG Tel: +44 (0) 1904 567614 Fax: +44 (0) 1904 435356

10 years, 1 month

Fwd: postdoctoral fellow position at Duke University

by Gary Green

We are seeking a highly motivated postdoctoral fellow to perform independent research in the area of posttraumatic stress disorder and traumatic brain injury. This position will be at Duke University and the Durham VA Medical Center working with Dr. Rajendra Morey and will include both pre-clinical and clinical studies, with emphasis on human neuroimaging biomarkers (lab website https://web.duke.edu/moreylab/index.html). The Postdoctoral Fellow will be responsible for the design and evaluation of experiments, development of new ideas that promote current research as well as performing quantitative data analysis in a multi-disciplinary team setting. An M.D. or Ph.D. in Neuroscience, Bioengineering, Psychology, or a related biomedical sciences is required, including demonstrated productivity in the field. Experience with pre-clinical experimental models of posttraumatic stress disorder, traumatic brain injury, neuroimaging software (e.g., Freesurfer, AFNI, FSL, etc) and Matlab/C-shell programming experience is required. The Postdoctoral Fellow is expected to attend meetings, develop and maintain collaborative relationships with staff and other agencies, write accurate and comprehensive assessments and reports, and prepare and publish scientific manuscripts. Therefore, excellent written and verbal communication skills are also required. Interested candidates should email Sarah Lancaster at sarah.lancaster(a)dm.duke.edu or Rajendra Morey at rajendra.morey(a)duke.edu. Rajendra Morey, M.D., M.S. Associate Professor Psychiatry and Behavioral Sciences, and Duke-UNC Brain Imaging and Analysis Center Duke University School of Medicine Director, Neuroimaging Lab Mental Illness Research Education and Clinical Center Durham VA Medical Center Phone: 919-286-0411 x 6425 Fax: 919-416-5912 email: rajendra.morey(a)duke.edu web: www.duke.edu/web/moreylab

10 years, 1 month

Important: Presentation and MRI synching

by Andre Gouws

This affects: fMRI users using pulses from the MRI scanner with the Presentation software package Does not affect: fMRI users who do not use pulses from the scanner or who use PsychToolbox / Psychopy. For users who do use Presentation with MRI trigger timing, please see the instructions for changing your experiments to use the new, more reliable trigger capture device. These changes should be made immediately as the system is now active. https://www.ynic.york.ac.uk/docs/TechInfo/Misc/ParallelPort#MRIPresentation The changes are minor and should only take a minute to implement. Any trouble or confusion, please contact me directly. -- Andre' ************************************************************************ Andre Gouws York Neuroimaging Centre University of York The Biocentre York Science Park Heslington YO10 5NY Tel: +44 (0) 1904 435327 Fax: +44 (0) 1904 435356

10 years, 1 month

Fwd: REGISTRATION OPEN - Official SPM for fMRI course, London, May 2015

by Gary Green

Dear all, I am pleased to announce that *registration is now open* for the official SPM course covering fMRI/MRI/VBM in London. It will be held Thursday 14^th May to Saturday 16^th May 2015 (directly after the SPM for MEG/EEG course, which will be held at the same venue). To register, please visit http://onlinestore.ucl.ac.uk/browse/extra_info.asp?compid=1&modid=2&deptid=… . (Please note that all attendees must register via that link – even if they previously filled in the “pre-registration” form.) The course is organised by the Methods Group at the Wellcome Trust Centre for Neuroimaging (“the FIL”), where SPM is developed. The three-day course will be divided into theoretical sessions covering experimental design and statistical inference and practical sessions in which SPM12 will be used to analyse exemplar data sets. This course is suitable for both beginners and more advanced users, with topics including image pre-processing, the general linear model (GLM), voxel-based morphometry (VBM) and Dynamic Causal Modelling (DCM). The programme for the course is below. Kind regards, Peter. Peter Zeidman, PhD Methods Group Wellcome Trust Centre for Neuroimaging 12 Queen Square London WC1N 3BG peter.zeidman(a)ucl.ac.uk <mailto:peter.zeidman@ucl.ac.uk> *Programme (provisional):* *Thursday 14^th May* ** 08:45 – 09:15 Registration and Coffee 09:15 – 09:30 Introduction to the Course 09:30 – 10:00 Overview of SPM 10:00 – 10:30 Pre-processing for fMRI – Theory 10:30 – 11:00 Pre-processing for fMRI – Demo /Coffee/ 11:30 – 12:00 The General Linear Model 12:00 – 12:45 Contrasts and Classical Inference /Lunch/ 13:45 – 14:15 Group Analysis 14:15 – 15:00 Random Field Theory & Alternatives /Tea/ 15:30 – 16:15 Segmentation and VBM – Theory 16:15 – 17:00 Segmentation and VBM – Demo 17:00 – 18:00 “Questions and Answers” Clinic ** *Friday 15^th May* ** 09:30 – 10:15 Experimental Design 10:15 – 11:00 Event-related fMRI – Theory /Coffee/ 11:30 – 12:15 Event-related fMRI – Demo 12:15 – 13:00 Bayesian Inference /Lunch/ 14:00 – 15:00 Dynamic Causal Modelling for fMRI /Tea/ 15:30 – 16:30 DCM for fMRI – Advanced Topics 16:30 – 17:15 DCM for fMRI – Demo 17:15 – 18:00 “Questions and Answers” Clinic /18:30 –/ /Social Event/ // *Saturday 16^th May* *PRACTICAL WORKSHOPS* 9:30 – 10:00 Introduction; Allocation of Groups 10:00 – 15:30 Parallel session in small groups covering: fMRI analyses (several groups depending on attendees’ level of knowledge), Voxel-Based Morphometry (VBM) and Dynamic causal modelling (DCM). /Coffee / 16:00 – 17:00 Workshop feedback presentations

10 years, 1 month

YNiC seminar 19th March

by rem

Dear Users This Thursday (from 4 pm in B020), there will be two internal project proposal presentations from Jonny Smallwood's group: * 1) Differences between the Default Mode Network's activity during self-relevant and not-self-relevant memory formation * Irene de Caso *2) Window to the wandering mind - an fMRI investigation on the role of pupil dilation in the occurrence of self-generated thought* Mahiko Konishi Abstract Occurrences of mind-wandering, i.e. shifting our attention from the external environment to our self-generated thoughts, are spontaneous, dynamic experiences that clearly illustrate the fleeting identity of consciousness. Due to its subjective nature, first-person point of view measures like self-reports and experience sampling, such as stopping a participant in the middle of a task and asking him if he was focused on the task or distracted, have long been the state of the art for the study of self-generated thought. These methods, while managing to capture instances of this experience, lack of a way to objectively gauge occurrences of self-generated thought from a second- or third-person point of view without disrupting the experience itself. As there is previous evidence that pupil dilation tracks fluctuations in mind wandering and that these are also linked at a neural level with the activation of the Default Mode Network, we aim to bring the two methods together in order to triangulate (with the help of experience sampling) the temporal dynamics of self-generated thought. Everyone is welcome to attend and refreshments will be available after the seminar. Best wishes Rebecca -- ************************************************************************ Dr. Rebecca E. Millman Science Liaison Officer York Neuroimaging Centre The Biocentre York Science Park Heslington YO10 5DG Tel: +44 (0) 1904 567614 Fax: +44 (0) 1904 435356

10 years, 1 month

Fwd: Faculty Position in Educational Neuroscience and Psychology

by Gary Green

The Centre for Research and Development in Learning (CRADLE) and the Division of Psychology, School of Humanities and Social Sciences, Nanyang Technological University (NTU) invite applications for a tenure-track Assistant Professorship in Educational Neuroscience and Psychology. CRADLE@NTU serves as an activity and technology incubator for researching and transforming learning in higher education. The mission of CRADLE is to integrate research in Neuroscience, Psychology, Pedagogy and Technology to inform learning and education. We believe that transformative innovation can happen at the nexus of these different fields. Our research strands provide synergies between these disciplines in the hopes such collaborative efforts may give way to a New Science of Learning. The Division of Psychology at Nanyang Technological University is a relatively young program with a cohesive faculty dedicated to high-quality research and teaching. The Division was recently ranked 45th in the world (http://www.topuniversities.com/university-rankings/university-subject-ranki…) and has seen continued growth in recent years. For further information about the Division, please refer to the following website: http://www.hss.ntu.edu.sg/Programmes/psychology/Pages/Home.aspx The successful candidate will be involved centrally in a new research program in Educational Neuroscience within CRADLE to conduct research in the study of thinking and/or the neuroscience of learning. For the study of thinking, research will involve translation of the study of thinking into learning design and solutions for higher education settings, including the use of eLearning and learning analytics. The research in the neuroscience of learning (cognitive or affective) will aim to bridge findings from educational neuroscience to educational strategies. Candidates with a PhD in Psychology/Neuroscience and post-doctoral research training and experience in one or more of the following research areas involving human subjects are encouraged to apply: educational neuroscience, cognitive/affective neuroscience, computational neuroscience, translational neuroscience and cognitive neuropsychology. The successful candidate will hold both an appointment as an investigator in CRADLE as well as a tenure track faculty position in the Division of Psychology. He/she will have the opportunity to establish an independent research program with possible access to behavioral labs and various neuroimaging facilities (MRI/EEG/MEG/NIRS/TMS). Research on the development of individual differences in learning and thinking is of particular relevance in young and older adults. Salary will be competitive and will commensurate with qualifications and experience. The University offers a comprehensive fringe benefit package. Information on emoluments and general terms and conditions of service is available at http://www.ntu.edu.sg/ohr/CareerOpportunities/TermsandConditions/Pages/Facu…. Application Procedure To apply, please refer to the Guidelines for submitting an Application for Faculty Appointment (http://www.ntu.edu.sg/ohr/CareerOpportunities/SubmitanApplication/Pages/Fac…) and email your application package (consisting of a cover letter, curriculum vitae, personal particulars form, teaching and research statements, three selected reprint/preprints of publications, and the names and email addresses of three potential referees) to: Charmaine.goh(a)ntu.edu.sg Review of applications will begin upon receipt and will continue until the position is filled. Only shortlisted candidates will be notified.

10 years, 1 month

Fwd: Postdoctoral Positions in Longitudinal Image Analysis and Machine Learning

by Gary Green

Postdoctoral Position in Longitudinal Image Analysis A postdoctoral position on 4D image registration and segmentation is available in IDEA lab (http://bric.unc.edu/ideagroup), UNC-Chapel Hill, NC. The successful candidate should have a strong background on Electrical or Biomedical Engineering, or Computer Science, preferably with emphasis on image analysis, or computer vision. Experience on medical image registration and segmentation is highly desirable. People with machine learning background are particularly encouraged to apply. Knowledge on neuroscience and programming background (good command of LINUX, C and C++, scripting, and Matlab) are desirable. The research topic will be the development and validation of 4D image registration and segmentation methods for longitudinal image analysis. The successful candidates will be part of a diverse group including radiologists, psychologists, physicists, biostatistician, and computer scientists, and will build upon the group's previous work on medical image analysis. If interested, please email resume to Dr. Guorong Wu (grwu(a)med.unc.edu <mailto:grwu@med.unc.edu>). Postdoctoral Position on Machine Learning A postdoctoral position on machine learning with application to neuroimage-based brain disease diagnosis and prediction is available in UNC-Chapel Hill. The successful candidate should have a strong background on Electronic Engineering, Biomedical Engineering, Statistics, or Computer Science, preferably with emphasis on machine learning, pattern classification, regression methods, or sparse representation. People with strong experience on machine learning are particularly encouraged to apply. The successful candidate will be part of a diverse group including radiologists, psychologists, physicists, biostatistician, and computer scientists, and will build upon the group's previous work on medical image analysis. The research topic will be the development and validation of novel machine learning methods for early diagnosis and prediction of brain disorders. Please visit group website (http://bric.unc.edu/ideagroup) for more information. If interested, please email resume to Dr. Guorong Wu (grwu(a)med.unc.edu <mailto:grwu@med.unc.edu>)

10 years, 1 month

YNiC seminar today

by rem

Dear Users This afternoon (from 4.15 pm in B020), Nicola Savill will give an internal project proposal presentation**on "Investigating individual differences in lexico-semantic activation in verbal short-term memory". Everyone is welcome to attend and refreshments will be available after the seminar. Best wishes Rebecca -- ************************************************************************ Dr. Rebecca E. Millman Science Liaison Officer York Neuroimaging Centre The Biocentre York Science Park Heslington YO10 5DG Tel: +44 (0) 1904 567614 Fax: +44 (0) 1904 435356

10 years, 1 month

Fwd: Job posting: Academic fellow in Edinburgh

by Gary Green

we are recruiting for a post-doc / academic fellow: For half of the time you will work with an interdisciplinary team of collaborators to further strategically develop facilities for funcational Magnetic Resonance Imaging (fMRI) at the University of Edinburgh, and the other half of the time you will pursue a specific application of fMRI in a neuropolitics project led by Professor Laura Cram from the Politics and International Relations subject area of the School of Social and Political Science. Annual salary of Â£31,342 to Â£37,394 per annum for 35 hours each week more info @Â https://www.vacancies.ed.ac.uk/pls/corehrrecruit/erq_jobspec_version_4.disp… Cyril -- The University of Edinburgh is a charitable body, registered in Scotland, with registration number SC005336.

10 years, 1 month

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