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YNiC seminar 16th February (room change)
by Rebecca E Millman 14 Feb '12

14 Feb '12

Dear Users This Thursday the Cognitive Neurosciences MSc students will be giving project proposal presentations for their empirical research projects. Please note that the talks will start at the usual time of 4.15 pm but these talks will take place in Psychology (B020). Please below for details of project titles and speakers. Best wishes Rebecca (1) MEG to faces: is M170 on the blink? - Pat Johnston JOHNSON, EILEANOIR BRIDGET, KOKKINAKIS, ATHANASIOS (2) Cortical mechanisms involved in attention to colour - Alex Wade (fMRI) OLIVER, ZOE, SMITH, AARON, WONG, PEONY (3) Imaging using hyperpolarised molecules - Gary Green ALI, SHELIZA CAMILLERI, JULIA ANN, TROY, DAVID MAURICE, CHEN, JING, ROBERTS, INDIA MELANIE SUZANNE (4) A combined fMRI-TMS study of semantic representation and control - Beth Jefferies (fMRI/TMS) COSTIGAN, ALISON GRACE LIU, YANNAN MURPHY, NICHOLAS GOGOLEV, PAVEL (5) Understanding Misunderstanding - S.A. Rueschemeyer (EEG) STONER, CATHERINE GARDNER, TOM -- Dr. Rebecca E. Millman York Neuroimaging Centre The Biocentre York Science Park York YO10 5DG Email: rem(a)ynic.york.ac.uk Tel: 01904 435 5373

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News about the flood in YNiC
by Gary Green 13 Feb '12

13 Feb '12

Dear Colleagues and Users As you may have heard, there has was a major flood within the Biocentre building on Sunday afternoon. Unfortunately we only found out about this when computers went off line. By that time water had been leaking into our area for about two hours. It took a further three hours before the problems were brought under control. Water came through the ceilings into YNiC and has caused damage within a number of rooms. The most seriously affected area was the server room. Mark Hymers and his colleagues managed to get a large amount of the equipment out of the room but not before some serious damage had been done. We now have to assess the extent of that damage. I am sorry to say that this will take time. We have already emptied water out of many disc drives, servers, network switches and power supplies. In other words we are very badly affected by this flood. The University insurers have been informed and we are waiting for a loss adjustor to come to the site. A very basic set of services have been re-established. These allow psych-mail and ynic-mail to work as we realise that people would have been greatly affected by the loss of those services. But we have to say that these services are not guaranteed. The machines that are running may have been affected by the water damage and may fail. We may also have to change the servers managing these services at short notice. I apologise for any inconvenience that may be caused. We do not have any other services within YNiC. The desktop computers, data-stores (MEG/MRI), remote access, tape-backups and other core services are not available. As the MRI and MEG devices depend on these services they are also not available. The Scratch spaces within the disc space have been affected and some data/analyses will be lost. Water leaked into the TMS area and is also not useable. I am unable at this stage to tell you when these facilities and resources will be available again. As information becomes available I will let you know of any changes. The YNiC open plan area is not accessible. We have used some desks for the temporary server configuration. Cables have had to be run across the floor and as there are no user accessible services we would be grateful if everyone can stay away from YNiC until further notice. This will affect a large number of people. We will try hard to get serive back to normal. at this stage I cannot tell you when this will be. It will certainly take at least two weeks as we will have to order some replacement machines and discs to be able to get anyway close to normal operation. Gary -- Gary Green York Neuroimaging Centre The Biocentre York Science Park York YO10 5DG tel (+44) (0) 1904 435349 fax (+44) (0) 1904 435356 mobile 07986778954

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no YNiC seminar this week
by rem 08 Feb '12

08 Feb '12

Dear Users There will not be a YNiC seminar this week (9th February). Normal service will resume next week when the MSc CN students will be giving project proposal presentations for their empirical research projects. 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

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YNiC seminar today
by rem 02 Feb '12

02 Feb '12

Dear Users Today (4.15-5.15 pm) Mark Hymers and Padraig Kitterick will be giving a talk on "Safe levels of noise exposure in MR scanning at YNiC". Please see below for the talk abstract. Everyone is welcome to attend. Best wishes Rebecca Abstract: In 2011 Mark Hymers, Padraig Kitterick, Rebecca Millman and Quentin Summerfield were awarded a small grant by the Department of Psychology to investigate the feasibility of carrying out auditory fMRI research safely at YNiC. This talk will present the main findings of the work funded by this grant and should be 1) of interest to anyone who uses MRI and 2) of particular interest to those who wish to carry out auditory fMRI experiments. MR scanners generate very loud levels (>105 dB SPL) of noise. Exposure to intense noise can potentially damage hearing and the effects of exposure to very loud sounds are cumulative over the total exposure time. Researchers who use MR scanners must protect their participants against hearing damage by ensuring that exposure to noise levels in MR remain within the UK legal limits. Important considerations that will impact the design of all MRI experiments are 1) the duration of the structural scans/fMRI experiments and 2) the amount of attenuation of unwanted noise provided by hearing protection available at YNiC. For auditory fMRI experiments, researchers must also take into account the effects of adding the presentation level of auditory stimuli to the scanner noise. The talk will provide an overview of the guidelines written by Hymers et al. in the full report and present easy-to-use tools for calculating levels of noise exposure in MRI experiments. -- ************************************************************************ 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

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Re : Downtime
by Gary Green 01 Feb '12

01 Feb '12

Apologies for cross-postings ------------------------------- Dear Colleagues, On Friday 10th February, YNiC Open Plan and Offices will be closing at midday. This is to allow for some essential maintenance and debugging to occur on one of the core IT systems. We will be taking the opportunity to also move certain data to new storage and perform some other system upgrades at the same time which would have otherwise required separate downtime. The MRI scanner will still be usable during this period and the Psychology mail server will not be affected. Systems which will be affected include the YNiC website, booking system, remote desktop, VPN service and all YNiC desktops. We expect these systems to be back online around 5pm. We apologise for any inconvenience caused Gary Gary Green York Neuroimaging Centre The Biocentre York Science Park Innovation Way Heslington York YO10 5NY http://www.ynic.york.ac.uk https://www.ynic.york.ac.uk/about-us/people/ggrg tel. +44 (0) 1904 435349 PA - Denize Chessa : +44 (0) 1904 435329 or email dcds500(a)ynic.york.ac.uk fax +44 (0) 1904 435356 mobile +44 (0) 788 191 3004

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Update on participant policy
by Sam Johnson 31 Jan '12

31 Jan '12

Hello all, As part of the continuous review of our participant safety guidelines there has been an amendment to the YNiC policy on scanning volunteers. With immediate effect any participant with fixed dental braces will not be scanned as part of an experiment. Although we have had no incidents locally, there is the possibility of significant heating of dental braces during an MRI scan. This is a small but unnecessary risk, and so we have excluded this group from any future experimental scanning. Our participant information and scan consent/safety questionnaire forms have been updated accordingly and you should make sure you have the most up to date versions of these forms when recruiting participants. The current versions of all YNiC forms should always be available at: https://www.ynic.york.ac.uk/forms and as ever, please let us know of any errors/omissions. Thanks, Sam -- Sam Johnson Science Manager, York NeuroImaging Centre University of York http://www.ynic.york.ac.uk

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Fwd: Position at OHBA - pass along if you know anyone interested
by Gary Green 30 Jan '12

30 Jan '12

FYI ----------------------------- Dear Colleague, Sorry to intrude in the inbox. We have a couple of positions on a new project along the lines of one of the priority areas in the collaborative grant (imaging, cognition in aging). If you know of any good candidates for this, please pass this along to them. The deadline is imminent (3rd Feb)! thanks, and nice to see everyone in London, Kia * * *Postdoctoral and Postgraduate Research Assistants* available at the Oxford Centre for Human Brain Activity (OHBA) and Department of Psychiatry, Warneford Hospital, Oxford We are recruiting a postdoctoral fellow and a postgraduate research assistant to work on an exciting new programme of research concerned with assessing cognitive functions during aging and developing psychological interventions for improving cognitive health and preventing cognitive decline. The programme of research involves a combination of neuropsychological assessments; cognitive testing; and brain imaging using structural and functional magnetic resonance imaging (MRI), magnetoencephalogram (MEG) and electroencephalography (EEG). The post will provide experience of clinically relevant research. The positions are funded for two years, and are supported the Programme in Cognitive Health, NIHR Biomedical Research Centre Oxford The deadline for applications is *midday on* *Friday 3rd February* For *details* of the position, please link to the advert: Postdoctoral: http://www.psych.ox.ac.uk/jobvacancies/101899 Postgraduate research assistant: http://www.psych.ox.ac.uk/jobvacancies/101897 *Application forms* and further details can be found at the following links: Postdoctoral: https://www.recruit.ox.ac.uk/pls/hrisliverecruit/erq_jobspec_version_4.jobs… <https://www.recruit.ox.ac.uk/pls/hrisliverecruit/erq_jobspec_version_4.jobs…> Postgraduate research assistant: https://www.recruit.ox.ac.uk/pls/hrisliverecruit/erq_jobspec_version_4.jobs… <https://www.recruit.ox.ac.uk/pls/hrisliverecruit/erq_jobspec_version_4.jobs…> For *informal enquiries* contact Professor Kia Nobre (kia.nobre(a)ohba.ox.ac.uk <mailto:Kia.nobre@ohba.ox.ac.uk>) or Professor Emily Holmes (emily.holmes(a)psych.ox.ac.uk <mailto:emily.holmes@psych.ox.ac.uk>) directly:

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YNiC seminar 2nd February
by rem 30 Jan '12

30 Jan '12

Dear Users This Thursday (4.15-5.15 pm) Mark Hymers and Padraig Kitterick will be giving a talk on "Safe levels of noise exposure in MR scanning at YNiC". Please see below for the talk abstract. Everyone is welcome to attend. Best wishes Rebecca Abstract: In 2011 Mark Hymers, Padraig Kitterick, Rebecca Millman and Quentin Summerfield were awarded a small grant by the Department of Psychology to investigate the feasibility of carrying out auditory fMRI research safely at YNiC. This talk will present the main findings of the work funded by this grant and should be 1) of interest to anyone who uses MRI and 2) of particular interest to those who wish to carry out auditory fMRI experiments. MR scanners generate very loud levels (>105 dB SPL) of noise. Exposure to intense noise can potentially damage hearing and the effects of exposure to very loud sounds are cumulative over the total exposure time. Researchers who use MR scanners must protect their participants against hearing damage by ensuring that exposure to noise levels in MR remain within the UK legal limits. Important considerations that will impact the design of all MRI experiments are 1) the duration of the structural scans/fMRI experiments and 2) the amount of attenuation of unwanted noise provided by hearing protection available at YNiC. For auditory fMRI experiments, researchers must also take into account the effects of adding the presentation level of auditory stimuli to the scanner noise. The talk will provide an overview of the guidelines written by Hymers et al. in the full report and present easy-to-use tools for calculating levels of noise exposure in MRI experiments. -- ************************************************************************ 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

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Fwd: [Sackler] PHD studentship available at Sussex on causality analysis of FMRI data
by Silvia Gennari 24 Jan '12

24 Jan '12

> > From: Anil Seth [a.k.seth(a)sussex.ac.uk] > Sent: 23 January 2012 16:04 > To: sackler(a)sussex.ac.uk > Subject: [Sackler] PHD studentship available at Sussex on causality analysis of FMRI data > > Apologies for cross-posting: > > Ph.D. studentship available: > Identifying causal interactions in functional MRI data using statistical time series analysis > > Supervised by Dr. Anil Seth, Prof. Hugo Critchley, and Dr. Lionel Barnett. > > University of Sussex, Brighton and Sussex Medical School, Sackler Centre for Consciousness Science > > Deadline: 5.00pm, Tuesday 31st January 2012 > Start date: September 2012 > > Details here: http://www.sebnet.org.uk/apply/seth > Apply here: http://www.sussex.ac.uk/study/funding/2012/opportunities/view/43 > > Our understanding of the brain has been revolutionized by functional neuroimaging, the ability to look at brain activity as a person is doing a task, or even while they do nothing at all. Traditionally, neuroscientists have used neuroimaging to localize different functions to different parts of the brain. However, brain functions depend on dynamical networks spanning many different brain regions. Identifying these networks, and especially networks that show causal interactions among their elements, is a major current challenge. This Ph.D. project will address this challenge for functional MRI (fMRI), the most popular neuroimaging method. fMRI measures time-varying changes in metabolic signatures of neural activity. To identify causal networks, we adopt the framework of Granger causality analysis (GCA) which assumes that causes both precede and help predict their effects. GCA applied to fMRI faces several challenges arising because the fMRI signal is an indirect and incompletely understood reflection of underlying neural activity, is sluggish, delayed, and is sampled only once every 2-3 seconds. The project will address these limitations by novel combinations of theory, modelling and experiment. A first objective will be to adapt recent theoretical findings showing invariance of GCA under filtering to the case of fMRI. A second objective will be to characterize the behavior of GCA on fMRI data via detailed computational models connecting neural activity to simulated fMRI responses. These models will be built by connecting existing large-scale spiking neuron simulations with forward models of hemodynamic responses. Third and finally, the resulting methods will be benchmarked on fMRI data obtained specifically for this purpose. > > The successful candidate will benefit from being part of the Sackler Centre for Consciousness Science (www.sussex.ac.uk/sackler), a world-leading research group in computational neuroscience, functional analysis of neuroimaging data, and consciousness research. The student will enjoy collaborative input from the Department of Informatics, the Brighton and Sussex Medical School, and the School of Psychology; will work within a thriving multidisciplinary group integrating many areas of neuroscience, and will have full access to state-of-the-art computational and neuroimaging facilities. Training in fMRI analysis and statistical methods will be provided. > > Applications should hold, or expect to obtain, a minimum upper-second honours degree (or equivalent) in a quantitative science discipline. Previous experience in neuroimaging and/or time series analysis is desirable but not required. > > Funding Notes: The South-East Biosciences Network (www.sebnet.org.uk) is advertising 33 Doctoral Studentships across the South-East of England. > > Applicants for this 4-year PhD, starting in September 2012, should possess or expect to be awarded an Upper Second or 1st Class Honours degree (or equivalent) in a relevant related subject. Studentships are available to UK nationals and EU students who meet the UK residency requirements. The studentship will support the student’s stipend and tuition fees. > > In the application process (http://www.sussex.ac.uk/study/pg/applying/), select the programme INFORMATICS PHD FULLTIME with SEP 2012 ENTRY. Be sure to mention explicitly that you are applying for the SEBnet studentship under the supervision of Dr Anil Seth. > > Informal enquiries to A.K.Seth-at-sussex.ac.uk > See also www.sussex.ac.uk/sackler > www.sebnet.org.uk/apply/seth > www.anilseth.com/ > -- > Dr. Anil Seth > Sackler Centre for Consciousness Science > Dept of Informatics, University of Sussex > www.anilseth.com > www.sussex.ac.uk/sackler > > ___________________________________________________________ > This email has been scanned by MessageLabs' Email Security > System on behalf of the Brighton and Sussex Medical School. > For more information see http://www.brighton.ac.uk/is/spam/ > ___________________________________________________________ > > ___________________________________________________________ > This email has been scanned by MessageLabs' Email Security > System on behalf of the Brighton and Sussex Medical School. > For more information see http://www.brighton.ac.uk/is/spam/ > ___________________________________________________________ > _______________________________________________ > You've received this email because you are subscribed to the Sackler mailing list at the University of Sussex. > To unsubscribe, or change your subscription options visit > https://lists.sussex.ac.uk/mailman/listinfo/sackler > The University's contact details are at http://www.sussex.ac.uk/about/contactus Silvia Gennari Department of Psychology University of York York, YO10 5DD United Kingdom http://homepage.mac.com/silvia_gennari/

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no YNiC seminar this week
by rem 23 Jan '12

23 Jan '12

Dear Users There will not be a YNiC seminar this week as the majority of YNiC staff will be at the MEG UK meeting in London. 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

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