- ynic-users

Bookings
by Antony Morland 19 Jun '08

19 Jun '08

Dear All, Please be aware that when you submit bookings for scanning there is a limit of 7 hours per week per scanner for your project. Also note, that requests for bookings after 4pm may not be possible to arrange because it involves additional radiographer cover. Thanks Tony Antony Morland PhD Deputy Director York Neuroimaging Centre Professor of Visual Neuroscience Department of Psychology University of York York YO10 5DD UK Tel +44 (0) 1904 432 860 Email a.morland(a)psychology.york.ac.uk

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Etiquette
by a.morland＠psychology.york.ac.uk 12 Jun '08

12 Jun '08

Dear All, I just wanted to pass on some advice with regard to accessing the MRI corridor, when you are about to scan participants. I am communicating this information because over recent days, quite consistently, investigators together with their participants have been milling around in the MRI corridor in advance of their booked slot. I know that this reflects enthusiasm and an effort on the investigators part to be well prepared for their scan session and make good use of time. However, the presence of people in the MRI corridor also runs the risk of disquieting patients who have been scanned for health reasons. I want to try and strike a balance between optimising the use of the scanner and maximising privacy for patients and research participants, who change clothes in the cubicles on the MRI corridor. Heres the plan then: (1) A maximum of two investigators, but preferably just one investigator, may accompany the research participant into the MRI corridor. (2) The investigator(s) can stay in the corridor only for the time it takes to explain the procedure for changing into scrubs to the participant. (3) The investigator(s) must then enter the interview room and wait for the participant to join them. (4) The MRI operator with then come to the interview room to invite the investigator(s) and participant through to the scanner suite. It is very likely that a patient will be changing back into their clothes at this time, so please keep conversation professional and to a minimum. (5) If other investigators wish to join the scan session, they may do so only at the discretion of the MRI operator, who will be able to determine whether patients privacy will be compromised by the presence of addition people and will be able to advise when investigators should leave to ensure privacy is maintained. If you find that the interview room has already been reserved, participants may change into scrubs, but must return to and wait in reception with the investigators until they are invited through to the scanner suite by the MRI operator. If investigators are found not to be conforming to this procedure, one of their scan sessions will be used as a training session on how to prepare participants for scanning. Thanks for your help with this. Tony

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Booking Changes
by Mark Hymers 09 Jun '08

09 Jun '08

Hi, As of today, there is a small change to the booking system for MEG and MRI at YNiC. Whilst previously, bookings were made on 10-minute intervals, in order to fit the clinical and research booking together more easily, this has now changed, for future bookings, to 15-minute intervals (i.e bookings start and end at 00, 15, 30 and 45 minutes past the hour). The bookings page (https://www.ynic.york.ac.uk/bookings/) has also been changed to show the timings of existing bookings more clearly. Thanks, Mark -- Mark Hymers York Neuroimaging Centre

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Beamformer Software Update
by Mark Hymers 01 Jun '08

01 Jun '08

Hi, Please be aware that the default behaviour of the beamformer has changed as of 01/06/2008. An artifact has been identified which has now been compensated for. As such, if you have run any beamforming studies prior to 01/06/2008, it is vitally important that you familiarise yourself with the issue of FilterPadding found at: https://www.ynic.york.ac.uk/doc/FilterPadding Any questions should be directed to analysis-support(a)ynic.york.ac.uk Thanks, Mark (on behalf of the YNiC Staff) -- Mark Hymers York Neuroimaging Centre

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YNiC open plan Wed 4th June
by rem 30 May '08

30 May '08

Dear Users We have some visitors coming to YNiC on Wednesday 4th June from 4.30-7.30 pm. We will be talking to the visitors in Open Plan and they will need access to at least half of the iMacs. If you intend to work in Open Plan on Wednesday afternoon, please could you move to a computer towards the back of the room (i.e. away from the projector) as we approach 4.30 pm. Thank you 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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Tuesday 3rd June
by Gary Green 30 May '08

30 May '08

Dear colleagues On Tuesday the 3rd of June from 2pm onwards, YNiC will be reviewed by the University. A committee will be investigating how we operate, talking to users & staff and reviewing our space. If you are thinking of working at YNiC that day, it would help us to have users in the open plan area in case the Committee Members wish to talk about User experiences/research. Of course I cannot guarantee that they will want to do this as we have only been sent a general outline about what they wish to cover in the two and half hour visitation Thanks Gary -- Gary Green York Neuroimaging Centre The Biocentre York Science Park Innovation Way Heslington York YO10 5DG http://www.ynic.york.ac.uk tel. 01904 435349 fax 01904 435356 mobile 07986 778954

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YNiC seminar TODAY
by rem 29 May '08

29 May '08

Jonathan Peirce will be speaking from 4-5 pm at YNiC on "PsychoPy - Psychology and neuroscience stimuli in python". http://www.nottingham.ac.uk/neuroscience/contact/a-z/M-R/peirce_jon.phtml Everyone is welcome to attend and there will be wine and soft drinks available after the talk. 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 29th May
by rem 23 May '08

23 May '08

Dear Users Next week's seminar (Thursday 4 pm at YNiC) will be given by Jonathan Peirce from the University of Nottingham. http://www.nottingham.ac.uk/neuroscience/contact/a-z/M-R/peirce_jon.phtml The title of his talk will be "PsychoPy - Psychology and neuroscience stimuli in python". Tim Andrews will be hosting this visit. Everyone is welcome to attend and there will be wine and soft drinks available after the talk. 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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4-D Neuorimaging IUGM
by rem 21 May '08

21 May '08

Dear Users The 4-D Neuroimaging International Users' Group Meeting will be held from 13th-15th July. YNiC has been asked to give a number of presentations; one of which is a slot on the "sensory/cognitive roundtable". This will be an excellent opportunity to present exciting MEG results from the YNiC user community to the rest of the 4-D IUGM delegates. Last year three users allowed me to use their data in the presentation. As each speaker at last year's roundtable was only given 6 minutes each to present, I could only include a couple of slides from each user. I envisage that the format will be similar this year and therefore I would only need a couple of slides from any user who would like to share their data. Either Michael Simpson or I will be the YNiC representative on the sensory/cognitive roundtable panel. For now please register any interest in using your data in the roundtable with me. 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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URGENT Publications and conference presentations
by Andy Ellis 21 May '08

21 May '08

I have agreed to collate information on publications and conference presentations reporting YNiC work. The deadline is very tight. Please could you send me ASAP a list of your own papers and presentations, including forthcoming work. One or two papers 'in preparation' would also be helpful. Many thanks Andy -- Professor Andy Ellis Department of Psychology University of York York YO10 5DD England Tel. +44 (0)1904 433140 http://www.york.ac.uk/depts/psych/www/people/biogs/awe1.html

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[Fwd: [ Post-doc position at CUBRIC, Cardiff]
by Gary Green 16 May '08

16 May '08

Dear users I have been asked to forward this : ------------ FMRI & EEG studies of neurovascular coupling Cardiff University Brain Research Imaging Centre (CUBRIC) School of Psychology Post-doctoral Research Associate (Combined EEG-FMRI) Applications are invited for an experienced neuroimaging researcher to work on combined EEG-FMRI and quantitative FMRI techniques in humans. You would work with the FMRI Director, Dr Richard Wise, to develop empirical measures of neurovascular coupling in humans. This is important in the long term development of FMRI as a technique for examining changes in brain activity induced by pharmacological agents and neurological disease. The successful applicant would design, implement and analyze combined EEG-FMRI studies with the aim of exploring the relationship between electrophysiological and haemodynamic signals for both sensory-evoked and ongoing (resting) brain activity. An important component of the project lies in relating FMRI signals to physiological measurements from volunteers. (e.g. breathing, cardiac cycle). Respiratory challenges (e.g. breathing tasks) and pharmacological challenges in collaboration with clinical colleagues would also be used to modify the baseline physiology of participants in experiments. Candidates should have a PhD in a relevant area of neuroimaging and be experienced in the analysis of FMRI data. The post is fixed-term for 2 years with a salary up to £33780 (grade 6). Informal enquiries should be made to Dr Richard Wise, CUBRIC, School of Psychology, Cardiff University, Park Place, Cardiff, UK, CF10 3AT. (http://www.cardiff.ac.uk/psych/cubric/). Telephone: +44 (0)29 2087 0358 Email: WiseRG(a)cardiff.ac.uk . Applications should be made through the Cardiff University website: http://www.cardiff.ac.uk/jobs/academic/index.html http://www.cardiff.ac.uk/jobs/academic/20080298-290508.html Vacancy ref: 2008/0298 The closing date for applications is Friday 29 May 2008. Richard Wise FMRI Director CUBRIC School of Psychology University of Cardiff Park Place Cardiff CF10 3AT Tel: +44 (0)29 2087 0358 (direct) 0365 (reception) Fax: +44 (0)29 2087 0339 -- Gary Green York Neuroimaging Centre The Biocentre York Science Park Innovation Way Heslington York YO10 5DG http://www.ynic.york.ac.uk tel. 01904 435349 fax 01904 435356 mobile 07986 778954

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YNiC seminar TODAY
by rem 15 May '08

15 May '08

Ekaterini Klepousniotou will be speaking from 4-5 pm at YNiC on "The When and Where of Lexical Ambiguity Processing: Evidence from EEG and fMRI ". http://www.psyc.leeds.ac.uk/people/ekaterini/index.htm Everyone is welcome to attend and there will be wine and soft drinks available after the talk. 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 ASC - Today - 4pm B020
by Michael Simpson 14 May '08

14 May '08

Dear all, given that at least 2 members of YNiC staff had failed to remember that there is an ASC today, I thought it would do no harm to send a another reminder. So, 4pm today, Psychology B020, see the email sent to ynic-users yesterday for the agenda. Michael -- Dr Michael Simpson Science Liaison Officer York Neuroimaging Centre Innovation Way York YO10 5DG Tel: 01904 567614 Web: http://www.ynic.york.ac.uk

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Piers Cornelissen ASC - Wednesday 14th May - 4pm B020.
by Michael Simpson 13 May '08

13 May '08

Dear all, Piers has forwarded to me the following agenda for the YNiC ASC tomorrow, Wednesday 14th May. Just to remind you, this will take place in Psychology room B020 at 4pm. Michael -- Dear all, We have just finished some preliminary analyses of MEG data collected from a fast phonological priming task (e.g. brane priming BRAIN, versus brone priming BRAIN) that I would like to report and discuss. The reason for doing the experiment, as many of you know, is that I have wanted to get some clearer insight into the role of the very early activation we have seen across a number of experiments, in left post. sup. IFG and adjacent precentral gyrus during visual word recognition tasks. Initial results from the group analysis of beamformed images within experimental conditions were very encouraging - a real yippee moment. However, once we started analysing virtual electrode data to compare directly between experimental conditions, things become a bit more prickly. While we currently have some results which I think are convincing, I would really like to discuss the issues that have been raised especially regarding the group comparisons of Stockwell transforms, such as: a) For comparisons of Stockwell plots at the group level should we compare differences or percentage signal change between conditions? b) How should we handle the (in our case) quite marked inter-subject variability? c) Should we consider some kind of normalisation between pairs of conditions prior to statistical analysis? We would really appreciate your thoughts on these and other questions, and your opinions about how best to proceed, Best Piers C -- Dr Michael Simpson Science Liaison Officer York Neuroimaging Centre Innovation Way York YO10 5DG Tel: 01904 567614 Web: http://www.ynic.york.ac.uk

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YNiC Seminar 15th May
by rem 12 May '08

12 May '08

Dear Users This week's seminar (Thursday at 4 pm in YNiC) will be given by Ekaterini Klepousniotou from the University of Leeds. http://www.psyc.leeds.ac.uk/people/ekaterini/index.htm The title of the talk will be "The When and Where of Lexical Ambiguity Processing: Evidence from EEG and fMRI". Everyone is welcome to attend and there will be wine and soft drinks available after the talk. 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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FSL practical on event related designs (MsC CNS)
by Silvia Gennari 09 May '08

09 May '08

Dear all, As promised last term, I am planning to give a practical session at YNiC on Thursday the 15th at 10AM. I will review the FSL procedures for analyzing data and I will show you how to obtain optimal schedules for event related designs. I am sending this to YNiC users in case someone else is interested or in case someone is planning to have a quite time in the open plan that morning. Silvia Silvia Gennari Department of Psychology University of York York, YO10 5DD United Kingdom

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YNiC seminar TODAY
by rem 08 May '08

08 May '08

Matthew Brett will be speaking from 4-5 pm at YNiC on "Finding and using regions of interest". Wine and soft drinks will be available afterwards. http://www.mrc-cbu.cam.ac.uk/people/matthew.brett/ -- ************************************************************************ 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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New Documentation: Workflow
by Sam Johnson 07 May '08

07 May '08

Hello all, As one or two of you may have noticed we've been continuing the ongoing push to improve the documentation in the centre, the latest step of which is a workflow document that will hopefully ease the passage of all projects here at YNiC. This is essentially a route finder to what we think will be the most relevant help and assistance you need depending on the stage of your project, along with any vital information for the work you are currently doing. It includes sections from the first approach an investigator might make to the centre, through to writing up your study. Some sections are more verbose than others, but we hope we've got the balance right between the information you need (and where to get more details), and a easily digestible amount of information at any one time. At present there are a few paper handouts on the long benches in Open Plan. If they disappear we'll take that as a good sign and make arrangements for a more permanent supply, otherwise this documentation, along with updated induction and safety guides, can be found on the website at: https://www.ynic.york.ac.uk/guides/ Here you'll find both web-based and downloadable pdf versions available. As ever, we hope we've covered the key points, but welcome any and all suggestions for improvements. Please send your comments to: support(a)ynic.york.ac.uk Although we hope to have stable versions as soon as possible, if you're looking at paper or pdf versions you've downloaded, it's always a good idea to check you have the most recent version (as indicated in the top left hand corner date stamp). Thanks, Sam -- Sam Johnson Science Manager, York NeuroImaging Centre University of York http://www.ynic.york.ac.uk

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YNiC ASC - Wednesday 14th May - Piers Cornelissen
by Michael Simpson 06 May '08

06 May '08

Dear all, this is just a quick mailing to advertise a YNiC ASC on Wednesday May 14th. It will be chaired by Piers Cornelissen and will be on the subject of his MEG priming study. Nearer the time, Piers will forward an agenda. And as before, the session will take place in Psychology B020, at 4pm. Please come along and join in the discussion. Following the YNiC ASC, there will hopefully be a short digest of the session emailed to ynic-users. Thanks, Michael -- Dr Michael Simpson Science Liaison Officer York Neuroimaging Centre Innovation Way York YO10 5DG Tel: 01904 567614 Web: http://www.ynic.york.ac.uk

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YNiC seminar 8th May
by rem 06 May '08

06 May '08

Dear Users This week's seminar (4 pm at YNiC) will be given by Matthew Brett from the CBU at the University of Cambridge. http://www.mrc-cbu.cam.ac.uk/people/matthew.brett/ The title of his talk will be "Finding and using regions of interest". Everyone is welcome to attend and there will be wine and soft drinks available after the talk. 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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This just in
by Philip Quinlan 02 May '08

02 May '08

Current Directions in Psychological Science Vol 17 (2) April 2008 is a special issue entitled The interface between neuroscience and psychological science subtitle A Sun Reader's Guide to Head Magnetics so very good for those (like me) who dont want to read the proper literature. -- ******************************************************************************** Philip Quinlan E-Mail: ptq1(a)york.ac.uk Department of Psychology FAX: (01904) 433181 University of York Tel: (01904) 430000 Ext. 3135 Heslington Direct : (01904) 433135 York Telex: 57933 YORKUL YO10 5DD U.K. ********************************************************************************

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Correction to doc wiki e-mail
by Michael Simpson 01 May '08

01 May '08

Dear all, I have made my usual mistake. The links for the pages on the doc wiki should be: https://www.ynic.york.ac.uk/doc/MEGFrontPage https://www.ynic.york.ac.uk/doc/MRIFrontPage https://www.ynic.york.ac.uk/doc/ITFrontPage https://www.ynic.york.ac.uk/doc/Miscellaneous https://www.ynic.york.ac.uk/doc/TechnicalInfo https://www.ynic.york.ac.uk/doc/YNiCGlossary I shouldn't send emails at the end of the day! Apologies, Michael -- Dr Michael Simpson Science Liaison Officer York Neuroimaging Centre Innovation Way York YO10 5DG Tel: 01904 567614 Web: http://www.ynic.york.ac.uk

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Changes to the doc wiki
by Michael Simpson 01 May '08

01 May '08

Dear all, the more observant of you may have noticed that there have been a number of changes to the Doc wiki recently. In particular there are now six areas about which there is documentation: https://www.ynic.york.ac.uk/docwiki/MEGFrontPage https://www.ynic.york.ac.uk/docwiki/MRIFrontPage https://www.ynic.york.ac.uk/docwiki/ITFrontPage https://www.ynic.york.ac.uk/docwiki/Miscellaneous https://www.ynic.york.ac.uk/docwiki/TechnicalInfo https://www.ynic.york.ac.uk/docwiki/YNiCGlossary There has also been a little bit of tidying up here and there. In particular, the MEG Front Page was getting rather long. Don't panic, we haven't deleted everything! The re-organisation just means that the documentation for MEG now has five separate pages. These pages are linked from the MEG Front Page, and are on the following areas; Establishing Key Parameters; Processing Epoch Data; MEG Data Visualisation; Sensor Space Analysis; Source Space Analysis. As ever, there may have been an odd error in the re-edit. If you spot any errors, please email <support(a)ynic.york.ac.uk> and let us know the problem. With thanks, Michael -- Dr Michael Simpson Science Liaison Officer York Neuroimaging Centre Innovation Way York YO10 5DG Tel: 01904 567614 Web: http://www.ynic.york.ac.uk

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Help offered
by Antony Morland 29 Apr '08

29 Apr '08

Dear All, I am forwarding a message from Theresa Jones, who is a highly motivated second-year student. As you can read in her message, she is keen to gain research experience at the imaging centre. She can only help during this term, because she has work organized over the summer vacation. Could you please email her directly if you have anything for her to do? Thanks Tony -----Original Message----- From: tej500(a)york.ac.uk [mailto:tej500@york.ac.uk] Sent: 25 April 2008 13:59 To: arm501(a)york.ac.uk Subject: Research experience Hi just a qucik email following my supervisor meeting. I'm really keen to get involved in some of the research going on in the neuroimaging centre. If you could ask around if anyone needs any sort of help I would be very grateful! Many thanks, Theresa Jones

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YNiC seminar TODAY
by rem 24 Apr '08

24 Apr '08

Dear Users This Thursday (24th April) there will be a seminar at YNiC from 4-5 pm about "Hyperpolarised gas MR physics and engineering". The speaker is Dr. Jim Wild from the University of Sheffield: http://www.shef.ac.uk/medicine/staff/wild.html All are welcome and drinks will be available afterwards. 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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