- ynic-users

CfA: BCCN 2010 - Berlin Sept 27 - Oct 1
by Richard Lee 15 Jun '10

15 Jun '10

For your information: > > === Call for Abstracts === > > Bernstein Conference on Computational Neuroscience (BCCN 2010) > > The Bernstein Conference on Computational Neuroscience (BCCN) is an > annual meeting of researchers working in Computational Neuroscience > and Neurotechnology. It has grown out of the annual Symposia of the > German National Bernstein Network for Computational Neuroscience, > which have been held since 2005. Now in its 6th year, organized by the > Bernstein Focus: Neurotechnology at the Berlin Institute of > Technology, it has been opened as an international conference. The > BCCN is a single track conference that covers all aspects of > Computational Neuroscience and Neurotechnology. We invite the > submission of abstracts from all relevant areas. Selected abstracts > will be published in the journal Frontiers in Computational > Neuroscience. > > The meeting is open for contributions from all relevant areas of > computational neuroscience including, but not limited to: learning and > plasticity, sensory processing, motor control, reward system, brain > computer interface, neural encoding and decoding, decision making, > information processing in neurons and networks, dynamical systems and > recurrent networks, and neurotechnology. > > CONFERENCE DATE AND VENUE: > September 27 - October 1, 2010 > Technische Universität Berlin > Berlin, Germany > > http://www.bccn2010.de/ > > PHD STUDENT-SYMPOSIUM: > October 1st, 2009 > Technische Universität Berlin > Berlin, Germany > > IMPORTANT DATES: > Abstract submission deadline: July 2, 2010 > Poster submission deadline: July 2, 2010 > Notification of acceptance: August 2, 2010 > Early registration closes: August 18, 2010 > > CONFIRMED INVITED SPEAKERS: > Lars-Kai Hansen (Technical University of Denmark) > Ernst Fehr (University of Zurich) > Pascal Fries (Ernst Strüngmann Institute) > Peter Jonas (Albert-Ludwigs-Universität Freiburg) > Misha Tsodyks (Weizmann Institute of Science) > Gero Miesenböck (University of Oxford) > > ORGANIZING COMMITTEE: > General Chair: Klaus-Rober Müller > Conference Office: Matthias L. Jugel, Imke Weitkamp > > PROGRAM COMMITTEE > Demian Battaglia, Matthias Bethge, Armin Biess, Benjamin Blankertz, > Axel Borst, Martin Burghoff, Gabriel Curio, Ulrich Egert, > Roland Fleming, Alexander Gail, Jan Gläscher, Tim Gollisch, > Ralf Haefner, John-Dylan Haynes, Leo van Hemmen, Andreas Herz, > Frank Hesse, Christian Igel, Dirk Jancke, Christoph Kayser, > Richard Kempter, Peter König, Christian Leibold, Sebastian Möller, > Klaus-Robert Müller, Andreas Neef, Klaus Obermayer, Stefano Panzeri, > Petra Ritter, Constantin Rothkopf, Gregor Schöner, Jens Steinbrink, > Jochen Triesch, Thomas Wachtler, Felix Wichmann, Laurenz Wiskott, > Annette Witt, Gabriel Wittum > -- > Matthias L. Jugel - Industry Liaison Manager > Bernstein Focus: Neurotechnology > Fon: +49 170 226 1897, +49 30 314 78626 > Fax: +49 30 314 78622 > > Berlin Institute of Technology > Faculty IV, Machine Learning > Franklinstr. 28/29, Sekr. FR 6-9 > D-10587 Berlin, Germany >

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YNiC seminar postponed
by rem 08 Jun '10

08 Jun '10

Dear Users The scheduled seminar for this week (10th June) has been postponed to avoid clashing with the undergraduate Leaving Day events. Koen's talk will be rescheduled for a future date. Please note there will NOT be a seminar at YNiC this Thurdsay. 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 10th June
by rem 08 Jun '10

08 Jun '10

Dear Users This week (4 pm, YNiC open plan) there will be a presentation by Koen Haak from the Department of Artificial Intelligence, University of Groningen. The title of Koen's talk is "Statistical and structural pattern recognition in human visual cortex." Everyone is welcome to attend. 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 03 Jun '10

03 Jun '10

Dear Users Today Shane Lindsay will give a project proposal talk at 4 pm in YNiC open plan on "Encoding effects for novel and existing words". This is a proposal for an fMRI experiment which will look at the initial encoding of novel and existing words to see how brain activity, particularly in the medial temporal lobes, will predict subsequent recognition and recollection outside the scanner Everyone is welcome to attend. 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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some useful papers on resting state
by Gary Green 02 Jun '10

02 Jun '10

The current edition of Frontiers in Systems Neuroscience http://frontiersin.org/neuroscience/systemsneuroscience/ has a set of useful papers on resting state analyses and connectivity measures -- Gary Green York Neuroimaging Centre The Biocentre York Science Park Innovation Way Heslington York YO10 5DG http://www.ynic.york.ac.uk https://www.ynic.york.ac.uk/about-us/people/ggrg tel. +44 (0) 1904 435349 PA (Claire Fox) +44 (0) 1904 435329 fax +44 (0) 1904 435356 mobile +44 (0) 788 191 3004

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[Fwd: [SPM] Postdoctoral Position: TMS & FMRI]
by Gary Green 02 Jun '10

02 Jun '10

FYI ======================= I will shortly be advertising for a 3-year Postdoctoral Position at the newly opened Centre for Integrative Neuroscience & Neurodynamics, University of Reading. The project will entail using TMS and/or FMRI to test models of cortical-subcortical connectivity in cognition-emotion interaction. We will be looking for candidates with a strong analytic and technical skills as well as a PhD in a relevant discipline. Proficiency with the English language is also required. If you are interested in the position, I will be at the Human Brain Mapping conference next week. If you will be there, please email me to arrange a meeting, or if you are presenting a poster, let me know the details so that I can drop by. If not at HBM, please feel free to drop me an email. The official announcement for the position will be in a few weeks, with a starting date this summer or early autumn. Dr. Tom Johnstone Centre for Integrative Neuroscience & Neurodynamics School of Psychology and CLS University of Reading i.t.johnstone(a)reading.ac.uk http://www.reading.ac.uk/cinn

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Equipment in ynic
by Gary Green 01 Jun '10

01 Jun '10

Please can I make something very clear. No equipment should be taken from meg or mri under any circumstances. To do so puts other peoples' projects at risk and could also affect calibration issues. If people need to use equipment such as that housed in meg or mri, then they should discuss their needs directly with the user support manager, Andre Gouws, or myself. But to repeat myself , I will not give permission for any equipment to be removed Gary Green

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YNiC seminar 3rd June
by rem 01 Jun '10

01 Jun '10

Dear Users This week Shane Lindsay will give a project proposal talk at 4 pm in YNiC open plan on "Encoding effects for novel and existing words". This is a proposal for an fMRI experiment which will look at the initial encoding of novel and existing words to see how brain activity, particularly in the medial temporal lobes, will predict subsequent recognition and recollection outside the scanner Everyone is welcome to attend. 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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[Fwd: International Summerschool on Multimodal Integration]
by Gary Green 28 May '10

28 May '10

FYI Dear colleague, Thomas Knösche and I organize the 5th International Summer School in Biomedical Engineering on "Multimodal integration of functional brain measurements" The summer school will be held August 18-25, 2010, in Wittenberg/Germany (UNESCO World Heritage Site). For more information, please see our website: http://www.tu-ilmenau.de/fakia/Summerschool-2010.summerschool-20090.0.html I would be happy if you could distribute this call within your institute and forward it to interested colleagues. Best wishes, Jens Haueisen p.s. Please excuse me for any accidental double postings. -- Gary Green York Neuroimaging Centre The Biocentre York Science Park Innovation Way Heslington York YO10 5DG http://www.ynic.york.ac.uk https://www.ynic.york.ac.uk/about-us/people/ggrg tel. +44 (0) 1904 435349 PA (Claire Fox) +44 (0) 1904 435329 fax +44 (0) 1904 435356 mobile +44 (0) 788 191 3004

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[Fwd: summer studentship in Cambridge]
by Gary Green 27 May '10

27 May '10

-------- Original Message -------- Subject: summer studentship in Cambridge Date: Thu, 27 May 2010 17:05:42 +0100 From: Bob Carlyon <bob.carlyon(a)MRC-CBU.CAM.AC.UK> Reply-To: bob.carlyon(a)mrc-cbu.cam.ac.uk Organization: Medical Research Council To: EAR-MAIL(a)JISCMAIL.AC.UK Dear all, I'd appreciate it if you could alert any suitable & interested students to this opportunity: *MRC Cognition and Brain Sciences Unit – Cambridge* *Student Vacation Placement: Electrophysiological and behavioural studies of human hearing* * * The MRC Cognition and Brain Sciences Unit (CBSU) is an internationally renowned research institute with state-of-the-art cognitive neuroscience facilities, including 3T-fMRI (Siemens), EEG, access to neuropsychological patient panels, and an MEG facility (Elekta Neuromag). * * We are able to offer one student vacation placement to undertake a project of research under the guidance of Dr Bob Carlyon. The experiment will involve studies of human hearing, and will include both behavioural experiments and studies of auditory brainstem and cortical activity, using evoked potentials measured from scalp electrodes. The successful candidate will be trained in the appropriate techniques and will have the opportunity to contribute to the design and analysis of the experiments. This placement will be for an 8 week period between mid June until mid September – the exact timing will be agreed in advance with the supervisor. You will have, or be in the process of obtaining a degree in psychology or a related discipline, and show a keen interest in obtaining research experience. Previous experience in conducting behavioural experiments would be useful, but full training will be given. The stipend, which is funded by the Wellcome Trust, will be £200 per week. On site car and bicycle parking is available. Applications should be sent, preferably by email, to Joe Worth, joseph.worth(a)mrc-cbu.cam.ac.uk <mailto:joseph.worth@mrc-cbu.cam.ac.uk>, or alternatively by posting to 15 Chaucer Road, Cambridge, CB2 7EF. Please include a cover letter and current CV when applying. Closing date: 9^th June 2010 -- Dr. Bob Carlyon MRC Cognition & Brain Sciences Unit 15 Chaucer Rd Cambridge CB2 7EF England Tel: +44 1223 355294 Fax: +44 1223 359062 www.mrc-cbu.cam.ac.uk/hearing -- Gary Green York Neuroimaging Centre The Biocentre York Science Park Innovation Way Heslington York YO10 5DG http://www.ynic.york.ac.uk https://www.ynic.york.ac.uk/about-us/people/ggrg tel. +44 (0) 1904 435349 PA (Claire Fox) +44 (0) 1904 435329 fax +44 (0) 1904 435356 mobile +44 (0) 788 191 3004

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YNiC seminar today
by rem 27 May '10

27 May '10

This afternoon David Crewther will give a project proposal talk at 4 pm in YNiC open plan entitled "Nonlinearities in Multi-focal Magnetoencephalography" Abstract Multi-focal visual evoked potentials have become a standard tool in the diagnosis of glaucoma and retinal vascular disease. However, the randomization techniques employed to de-correlate sequences for stimulation of patches of visual field also offer the opportunity for analysis of non-linearities in evoked responses. These have been used to derive separate magnocellular and parvocellular contributions to the cortical VEP. Here we propose to develop similar m-sequence based pseudo-random stimulation techniques to MEG with the purpose of localizing the time-course of activation of the M and P pathways as they extend into dorsal and ventral cortical streams. A beam-former approach to this question will be followed, answering questions regarding the role of the “magnocellular advantage” in object recognition. An initial 13 patch cortically scaled m-sequence multi-focal stimulus has been developed. Extensions to higher resolution cortical imaging are proposed. However multi-focal fMRI imaging indicates eye-movement control is vital. Hence a gaze-contingent system using retinally-stabilized presentation is being developed that will allow an estimate of the optimal high resolution MEG mapping of visual cortex. All welcome *YNIC 5th Birthday drinks will be held immediately after the seminar* -- ************************************************************************ 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: [visionlist] CINN Summer School, University of Reading, UK]
by Tim Andrews 26 May '10

26 May '10

This summer school may be of interest to some of you... -------- Original Message -------- Subject: [visionlist] CINN Summer School, University of Reading, UK Date: Tue, 25 May 2010 13:02:47 +0100 From: Etienne B. Roesch <etienne.roesch(a)gmail.com> To: connectionists(a)cs.cmu.edu, SPM(a)JISCMAIL.AC.UK, nesy(a)city.ac.uk, eucogii-general-news(a)googlegroups.com, PSYCH-POSTGRADS(a)JISCMAIL.AC.UK, pgwtpsych(a)JISCMAIL.AC.UK, cvnet(a)mail.ewind.com, ccnc-info(a)psych.Colorado.EDU, visionlist <visionlist(a)visionscience.com>, COGPSY(a)LISTSERV.TAMU.EDU [Apologies for cross-posting..] Dear colleagues, We are pleased to announce the second edition of the CINN Summer School. The summer school is directed at graduate students and postdoctoral fellows from psychology, linguistics, neuroscience, computational neuroscience, mathematics, computer sciences and engineering, who wish to combine a theoretical approach to neurodynamics with practical experience in neuroimaging (MRI, EEG, TMS, fMRI-EEG, & EEG-TMS). We are very excited to announce a guest tutorial by Prof. Walter Freeman, and practical demonstrations of combined fMRI-EEG and combined EEG-TMS by Brain Products (http://www.brainproducts.com). More will soon be posted here: http://www.reading.ac.uk/cinn/cinn-summerschool.aspx Objective A successful approach to cognitive neuroscience and neurodynamics requires knowledge of both modelling and neuroimaging techniques. The objective of the CINN Summer School is to bridge the gaps between these fields, and to provide students with a practical understanding of both the brain and some of the cutting-edge methods to investigate it. Programme The summer school is organised from the 7th to the 16th of July. It will start with a 2-day course delivered in partnership with Brain Products (http://www.brainproducts.com) on combined fMRI-EEG, and combined EEG-TMS, including theoretical lectures and practical demonstrations using the facilities in CINN. The third day will provide boot strap sessions aimed at bringing all students up to speed with basic concepts in cognition, cognitive neuroscience and mathematics. In the following week, students will be given the opportunity to attend a series of lectures and tutorials by some of the leading personalities in their fields, including a guest tutorial by Prof. Walter Freeman. Classes will touch upon the following themes: emotion, inverse models, language, neural synchrony, neurodynamics and non-linear dynamics. Detailed program to be announced soon. More on the practical fMRI-EEG and EEG-TMS demonstrations here: http://www.brainproducts.com/filedownload.php?path=workshops/WS_Reading_Pro… Registration Registration to the summer school is now open. Attendance is free. Participants will be selected on the basis of the expected gain from the summer school. Registration for practical demonstrations (fMRI-EEG, and EEG-TMS) is limited. Unfortunately, we will not be able to offer any grant for travel or accommodation. To apply, send to cinn(a)reading.ac.uk by 15th of June, midnight GMT: your curriculum vitae and a one-page pdf document describing a) your research interests, b) your experience in neuroscience, computational neuroscience and mathematics, and c) your motivation to apply and how the summer school could help you in your research. Applications will be reviewed by the steering committee, and students who have not been selected will be given the opportunity to enter a waiting list. Venue Classes will be hosted at the University of Reading. Practicals using MRI, EEG and TMS will be hosted in the Centre for Integrative Neuroscience and Neurodynamics (CINN). The CINN is an interdisciplinary research facility where cutting-edge research meets world-class facilities: a research-dedicated 3T Siemens Trio MRI scanner, MR-compatible EEG recording systems (Brain Products), and a MR-compatible TMS delivery system (Mag & More, and Brain Products). --- Dr. Etienne B. Roesch Centre for Integrative Neuroscience and Neurodynamics University of Reading, UK _______________________________________________ visionlist mailing list visionlist(a)visionscience.com http://visionscience.com/mailman/listinfo/visionlist -- Dr Tim Andrews Department of Psychology University of York York, YO10 5DD UK Tel: 44-1904-434356 Fax: 44-1904-433181 http://www-users.york.ac.uk/~ta505/

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YNiC IT systems at-risk period
by Mark Hymers 25 May '10

25 May '10

Hi, On Thursday 3rd June between 1000 and 1500, we will be having the YNiC Server Room UPS serviced. This means that there will be no backup power in the server room during this time. This should not cause any disruption except in the unlikely event of total power loss to the Biocentre during this time. Unfortunately this work is unavoidable and it is not practical to have it performed out of hours. In the event of a major failure during this time, we have plans to shut down the cluster and use auxiliary UPSes to bring core systems back online quickly. Thanks, Mark -- Mark Hymers York Neuroimaging Centre

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Small software update
by Mark Hymers 25 May '10

25 May '10

Hi, I've just pushed a patched fslview out to all of the YNiC machines (including remote desktop service). The only change in this version is that it now defaults[0] to saving masks which are created as .nii.gz (NIFTI files) instead of .hdr/.img pairs (ANALYZE format). This makes sense as the rest of FSL has deprecated ANALYZE support and it causes all sorts of trouble later on in the analysis stream. Thanks to Jodie for bringing this to my attention. Please let me know of any problems this causes or if you find any machines which didn't get the update. Cheers, Mark [0] Although I say "defaults to", you can't force a different file output type easily in the GUI as far as I can tell. If anyone needs to for some reason, the correct way to make fslview output ANALYZE is to run fslview from the command line having first set the FSLOUTPUTTYPE environment variable, i.e.: $ export FSLOUTPUTTYPE=ANALYZE $ fslview I've no idea why anyone would want to still be using ANALYZE, but thought it should be mentioned for the sake of completeness. This is also the same mechanism as applies for the rest of FSL, but it should be noted that ANALYZE support is now partial and I believe is slated for removal in a future release. -- Mark Hymers York Neuroimaging Centre

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FW: [NLC2009] Only one week left to submit your abstracts!!
by Ekaterini Klepousniotou 25 May '10

25 May '10

FYI **************************************************************** Dr. Ekaterini Klepousniotou Lecturer in Cognitive Neuroscience & Neuropsychology Institute of Psychological Sciences University of Leeds Leeds LS2 9JT UK Tel: +44 (0)113 3435716 Fax: +44 (0)113 3435749 From: nlc_distribution-bounces(a)nlc2009.angularis.org [mailto:nlc_distribution-bounces@nlc2009.angularis.org] On Behalf Of Pascale Tremblay Sent: 25 May 2010 12:15 To: nlc_distribution(a)nlc2009.angularis.org Subject: [NLC2009] Only one week left to submit your abstracts!! Importance: High Dear colleague, A reminder that abstract submission for the second Neurobiology of Language Conference (NLC 2010) will be closing in one week, on Tuesday, June 1st at midnight (CST)! To submit an abstract, visit our website at http://www.neurolang.org. Don't miss this opportunity to share your research with the neurobiology of language scientific community! NLC 2010 will be held on November 11-12 2010 in San Diego as a satellite of the Society for Neuroscience annual meeting. A reminder that you do not need to attend the Society for Neuroscience (SfN) annual meeting, or be a member of SfN, to attend NLC. If you are planning to attend SfN, however, please note that SfN regulations allow individuals to present their SfN abstracts during satellite events. We look forward to seeing you in San Diego! Sincerely, Pascale Tremblay, Ph.D., Postdoctoral Scholar, The University of Chicago Steven L. Small, Ph.D., M.D., Professor, The University of Chicago The Neurobiology of Language Planning Group: Michael Arbib, Ph.D., University of Southern California, USA Jeffrey Binder, M.D., Medical College of Wisconsin, USA Vincent Gracco, Ph.D., McGill University, Canada Yosef Grodzinsky, Ph.D., McGill University, Canada Murray Grossman, M.D., Ed.D., University of Pennsylvania, USA Peter Hagoort, Ph.D., Max Planck Institute, Netherlands Gregory Hickok, Ph.D., University of California, Irvine, USA Marta Kutas, Ph.D., The University of California, San Diego, USA Alec Marantz, Ph.D., New York University, USA Howard Nusbaum, Ph.D., The University of Chicago, USA Cathy Price, Ph.D., University College London, UK David Poeppel, Ph.D., New York University, USA Rita Salmelin, Ph.D., Helsinki University of Technology, Finland Kunioshi Sakai, Ph.D., Tokyo University, Japan Steven L. Small, Ph.D, M.D., The University of Chicago, USA Sharon Thompson-Schill, University of Pennsylvania, USA Pascale Tremblay, Ph.D., The University of Chicago, USA Richard Wise, M.D., Ph.D, Imperial College, London, UK Kate Watkins, Ph.D., University of Oxford, UK

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To all who do fMRI scanning ..
by Andre Gouws 24 May '10

24 May '10

If your fMRI protocol (usually set up be me and saved for you one the scanner) uses BrainWave during acquisition (the screen that pops up after the radiographer does the prep-scan before each fMRI acquisition), please note the following: An observed bug in the GE software means that slices may be lost of if the BrainWave window is closed prematurely. If you are using Brainwave (i.e. if it is visible during your acquisitions) please make sure that it has reached 100% in the bottom right corner before closing it and moving on to the next scan .. either check this yourself or ask your friendly radiographer to check this for you on every scan. Let me know if you experience any problems. A -- Andre' ************************************************************************ Andre Gouws York Neuroimaging Centre The Biocentre York Science Park Heslington YO10 5DG Tel: +44 (0) 1904 435327 Fax: +44 (0) 1904 435356

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YNiC Seminar this Thursday
by Gary Green 24 May '10

24 May '10

This Thursday (May 27th), David Crewther will give a project proposal talk at 4 pm in YNiC open plan entitled "Nonlinearities in Multi-focal Magnetoencephalography" Abstract Multi-focal visual evoked potentials have become a standard tool in the diagnosis of glaucoma and retinal vascular disease. However, the randomization techniques employed to de-correlate sequences for stimulation of patches of visual field also offer the opportunity for analysis of non-linearities in evoked responses. These have been used to derive separate magnocellular and parvocellular contributions to the cortical VEP. Here we propose to develop similar m-sequence based pseudo-random stimulation techniques to MEG with the purpose of localizing the time-course of activation of the M and P pathways as they extend into dorsal and ventral cortical streams. A beam-former approach to this question will be followed, answering questions regarding the role of the “magnocellular advantage” in object recognition. An initial 13 patch cortically scaled m-sequence multi-focal stimulus has been developed. Extensions to higher resolution cortical imaging are proposed. However multi-focal fMRI imaging indicates eye-movement control is vital. Hence a gaze-contingent system using retinally-stabilized presentation is being developed that will allow an estimate of the optimal high resolution MEG mapping of visual cortex. All welcome YNIC 5th Birthday drinks will be held immediately after the seminar -- Gary Green York Neuroimaging Centre The Biocentre York Science Park Innovation Way Heslington York YO10 5DG http://www.ynic.york.ac.uk https://www.ynic.york.ac.uk/about-us/people/ggrg tel. +44 (0) 1904 435349 PA (Claire Fox) +44 (0) 1904 435329 fax +44 (0) 1904 435356 mobile +44 (0) 788 191 3004

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Seminar today
by Gary Green 24 May '10

24 May '10

Vitaly Napadow "Neuroimaging in basic and translational acupuncture research" This talk will take place today from 12-1 pm. Link to Vitaly Nadapow's website: Vitaly Napadow's webpage: http://www.nmr.mgh.harvard.edu/~vitaly/ *Brief Bio* Dr. Vitaly Napadow is an assistant professor at Harvard Medical School and the Department of Radiology at Massachusetts General Hospital. He received his Ph.D. in biomedical engineering from the Massachusetts Institute of Technology. Vitaly also graduated from the New England School of Acupuncture (NESA), and practices acupuncture at Brigham & Women's Hospital Pain Management Center. His research interests focus on the processing of acupuncture by the brain, and the mechanisms underlying acupuncture efficacy for various disease states including chronic pain. **Abstract** Acupuncture is an ancient East Asian healing modality that has been in use for more than 2000 years. Unfortunately, its mechanisms of action are not well understood, and controversy regarding its clinical efficacy remains. Importantly, acupuncture needling often evokes complex somatosensory sensations and may modulate the cognitive/affective perception of pain, suggesting that many effects are supported by the brain’s control of central nervous system networks. Modern neuroimaging techniques such as functional magnetic resonance imaging provide a means to safely monitor brain activity in humans and may be used to both characterize brain response to acupuncture stimulation, as well as to map the neurophysiological correlates of acupuncture’s effects on various pathologies. In this talk, I will outline some of our lab’s recent studies including (1) mapping the specific brain correlates of acupuncture sensation, known as deqi, which is thought to be associated with good clinical outcomes, (2) investigating acupuncture’s delayed effects on resting functional connectivity in default mode and sensorimotor brain networks, and (3) evaluating the effects of a course of clinical acupuncture therapy on somatosensory processing and somatotopy in patients with carpal tunnel syndrome. All welcome -- Gary Green York Neuroimaging Centre The Biocentre York Science Park Innovation Way Heslington York YO10 5DG http://www.ynic.york.ac.uk https://www.ynic.york.ac.uk/about-us/people/ggrg tel. +44 (0) 1904 435349 PA (Claire Fox) +44 (0) 1904 435329 fax +44 (0) 1904 435356 mobile +44 (0) 788 191 3004

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Today in YNiC
by Gary Green 20 May '10

20 May '10

This afternoon, the CEO of the MRC will be visiting YNiC. He will be in MRI and then MEG from 2.20pm until 3pm. If you would like to present an aspect of your work, even for 10minutes, you would be welcome to come along. There is also a seminar today at 4pm This week Gina Humphries will give a project proposal talk at 4 pm in YNiC open plan on "Semantic indeterminacy in the brain: linking production and comprehension processes". Abstract: "This study aims to examine which regions of the brain are recruited during sentence comprehension and sentence production. Gennari and MacDonald (2008, 2009) have recently argued that semantic ambiguity as to who-is-doing-what-to-whom in phrases is an important source of reading difficulty. For example, in reading “the movie that the director…,” a similar interpretation is entertained 90% of the time (that the director wrote the movie), whereas in reading “the director that the movie….,” many interpretations are possible. The authors showed that the proportion of alternative relationships entertained between the nouns, as indexed by a sentence completion study, predicts reading difficulty. Here, we aim to investigate the brain mechanisms underlying the comprehension and production of these structures. Specifically, we ask whether left inferior frontal gyrus (LIFG) and other regions of the language processing network such as posterior middle temporal gyrus (PMTG) are sensitive to the degree of who-is-doing-what-to-whom ambiguity in comprehension and production." Everyone is welcome to attend. -- Gary Green York Neuroimaging Centre The Biocentre York Science Park Innovation Way Heslington York YO10 5DG http://www.ynic.york.ac.uk https://www.ynic.york.ac.uk/about-us/people/ggrg tel. +44 (0) 1904 435349 PA (Claire Fox) +44 (0) 1904 435329 fax +44 (0) 1904 435356 mobile +44 (0) 788 191 3004

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YNiC seminar 20th May
by rem 17 May '10

17 May '10

Dear Users This week Gina Humphries will give a project proposal talk at 4 pm in YNiC open plan on "Semantic indeterminacy in the brain: linking production and comprehension processes". Abstract: "This study aims to examine which regions of the brain are recruited during sentence comprehension and sentence production. Gennari and MacDonald (2008, 2009) have recently argued that semantic ambiguity as to who-is-doing-what-to-whom in phrases is an important source of reading difficulty. For example, in reading “the movie that the director…,” a similar interpretation is entertained 90% of the time (that the director wrote the movie), whereas in reading “the director that the movie….,” many interpretations are possible. The authors showed that the proportion of alternative relationships entertained between the nouns, as indexed by a sentence completion study, predicts reading difficulty. Here, we aim to investigate the brain mechanisms underlying the comprehension and production of these structures. Specifically, we ask whether left inferior frontal gyrus (LIFG) and other regions of the language processing network such as posterior middle temporal gyrus (PMTG) are sensitive to the degree of who-is-doing-what-to-whom ambiguity in comprehension and production." Everyone is welcome to attend. 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 13 May '10

13 May '10

Dear Users Today Azizah Almaghyuli will give a project proposal talk at 4 pm in YNiC open plan on "Naming and comprehension after transcranial direct current stimulation in health volunteers and patients with stroke aphasia". The study will evaluate the effect of transcranial direct current stimulation( tDCS) on picture naming and synonym judgement in healthy participants, with the ultimate aim of evaluating whether this technique could be used to improve naming and comprehension difficulties following a stroke. Everyone is welcome to attend. 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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[Fwd: [SPM] Engineer position at USC, Los Angeles, January 2011]
by Gary Green 13 May '10

13 May '10

FYI ------------------------------------------------------------------------ Research Programmer, University of Southern California, Los Angeles, USA The Department of Electrical Engineering at the University of Southern California is seeking a research programmer to participate in the development, distribution and support of software for functional brain mapping. The programmer will be responsible for implementing software for all phases of the analysis of magnetoencephalograpy (MEG) and electroencephalography (EEG) data and its integration of other functional and structural imaging modalities. The resulting software, which will be developed under grant support from the National Institutes of Health, will be distributed to researchers throughout the US and the rest of the world, for analysis of data collected in cognitive neuroscience and clinical research studies. This project will be conducted under the supervision of Professor Richard Leahy in the Department of Electrical Engineering and will involve close collaboration with researchers at USC and other institutions. Responsibilities * Play a leading role in developing common workflow, data structures, and file formats for use in analysis of MEG and EEG data. * Develop and document code to implement algorithms for analysis and display of M/EEG data. * Development of procedures for automated testing of software and software updates. * Develop and support procedures for distribution and documentation of new software. * Participate in training of users * Participate in research meetings and interact with PhD students, postdocs and research faculty in Dr. Leahy's lab in the development of new approaches to the analysis of MEG and EEG data. * Work with collaborators who are also developing software to facilitate interoperability between software packages with the ultimate goal of producing a single software package for EEG and MEG data analysis. * More information about Brainstorm, the existing software package: http://neuroimage.usc.edu/brainstorm Minimum qualifications * Masters Degree in Computer Science or Electrical Engineering * 2 years post graduate experience * Knowledge of the basic principles underlying EEG and MEG signal processing * Programming experience with Matlab and Java Conditions of employment * Starting from January 2011 * Duration: position available for a minimum of two years * Salary: depends on experience and qualifications * USC has excellent benefits, including health benefits and retirement plans with employer contributions after six months. * The University of Southern California values diversity and is committed to equal opportunity in employment. Application * To apply, please send an email to Francois Tadel, main developer of the Brainstorm software: tadel(a)usc.edu. * Your application should include: your CV, a description of your programming skills, a detailed description of your previous software development projects. * Application deadline: Open until filled.

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YNiC seminar 13th May
by rem 10 May '10

10 May '10

Dear Users This week Azizah Almaghyuli will give a project proposal talk at 4 pm in YNiC open plan on "Naming and comprehension after transcranial direct current stimulation in health volunteers and patients with stroke aphasia". The study will evaluate the effect of transcranial direct current stimulation( tDCS) on picture naming and synonym judgement in healthy participants, with the ultimate aim of evaluating whether this technique could be used to improve naming and comprehension difficulties following a stroke. Everyone is welcome to attend. 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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external speaker at YNiC on 24th May
by rem 07 May '10

07 May '10

Dear Users Vitaly Napadow from the Department of Radiology, Harvard Medical School, will be giving a talk on "Neuroimaging in basic and translational acupuncture research" on Monday 24th May. This talk will take place from 12-1 pm in YNiC open plan. Everyone is welcome to attend. Best wishes Rebecca Link to Vitaly Nadapow's website: http://www.nmr.mgh.harvard.edu/~vitaly/ <http://www.nmr.mgh.harvard.edu/%7Evitaly/> *Brief Bio* Dr. Vitaly Napadow is an assistant professor at Harvard Medical School and the Department of Radiology at Massachusetts General Hospital. He received his Ph.D. in biomedical engineering from the Massachusetts Institute of Technology. Vitaly also graduated from the New England School of Acupuncture (NESA), and practices acupuncture at Brigham & Women's Hospital Pain Management Center. His research interests focus on the processing of acupuncture by the brain, and the mechanisms underlying acupuncture efficacy for various disease states including chronic pain. **Abstract** Acupuncture is an ancient East Asian healing modality that has been in use for more than 2000 years. Unfortunately, its mechanisms of action are not well understood, and controversy regarding its clinical efficacy remains. Importantly, acupuncture needling often evokes complex somatosensory sensations and may modulate the cognitive/affective perception of pain, suggesting that many effects are supported by the brain’s control of central nervous system networks. Modern neuroimaging techniques such as functional magnetic resonance imaging provide a means to safely monitor brain activity in humans and may be used to both characterize brain response to acupuncture stimulation, as well as to map the neurophysiological correlates of acupuncture’s effects on various pathologies. In this talk, I will outline some of our lab’s recent studies including (1) mapping the specific brain correlates of acupuncture sensation, known as deqi, which is thought to be associated with good clinical outcomes, (2) investigating acupuncture’s delayed effects on resting functional connectivity in default mode and sensorimotor brain networks, and (3) evaluating the effects of a course of clinical acupuncture therapy on somatosensory processing and somatotopy in patients with carpal tunnel syndrome. -- ************************************************************************ 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 4.1 upgrade
by Mark Hymers 06 May '10

06 May '10

Hi, I intend to upgrade FSL 4.1 on the YNiC Systems over the weekend from the current version (4.1.4) to the latest release 4.1.5.2. Details of the changes (which are only minor) are available at: http://www.fmrib.ox.ac.uk/fsl/fsl/whatsnew.html#revisions The only thing which is really relevant is that FLAMEO has a fix in it (which is strangely listed in the 4.1.4 errata, but seems to have only been released in 4.1.5) In addition, I've merged two extra bug fixes, one in fslmaths (related to TFCE calculation) and a syntax error fix in one of the scripts. Details are below as a patch series. Thanks, Mark diff --git a/debian/changelog b/debian/changelog index f2b3942..0c7f3ce 100644 --- a/debian/changelog +++ b/debian/changelog @@ -1,8 +1,10 @@ fsl-4.1 (4.1.5.2-1~yniclenny1) unstable; urgency=low * Merge 4.1.5.2 release. + * Merge syntax fix in rotate_bvecs. + * Merge fix for TFCE calculation in fslmaths. - -- Mark Hymers <mark.hymers(a)ynic.york.ac.uk> Wed, 05 May 2010 17:52:06 +0100 + -- Mark Hymers <mark.hymers(a)ynic.york.ac.uk> Thu, 06 May 2010 10:16:07 +0100 fsl-4.1 (4.1.4-3~yniclenny3) unstable; urgency=low diff --git a/src/avwutils/fslmaths.cc b/src/avwutils/fslmaths.cc index 0df7ef3..c47c854 100644 --- a/src/avwutils/fslmaths.cc +++ b/src/avwutils/fslmaths.cc @@ -823,7 +823,7 @@ if (!separatenoise) int connectivity = atoi(argv[++i]); for(int t=0;t<input_volume.tsize();t++) - tfce(input_volume[t], height_power, size_power, connectivity, 0, 0); + tfce(input_volume[t], height_power, size_power, connectivity, 0, input_volume[t].max()/100.0); } // }}} diff --git a/src/fdt/rotate_bvecs b/src/fdt/rotate_bvecs index e6aade9..2c10968 100755 --- a/src/fdt/rotate_bvecs +++ b/src/fdt/rotate_bvecs @@ -18,7 +18,7 @@ if [ -f ${bvecs}_old ];then echo "If you want to force this program to run, please remove the file ${bvecs}_old" echo "" exit 1 -done +fi /bin/cp ${bvecs} ${bvecs}_old #/bin/rm -f ${bvecs} -- Mark Hymers York Neuroimaging Centre

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