ynic-users November 2019

ynic-users@ynic.york.ac.uk

4 participants
10 discussions

Impromptu seminar Thu 28th @ 4pm: Motion resolved MRI and computational modeling in visual illusions.
by Andre Gouws 27 Nov '19

27 Nov '19

Hi YNiCers, Benedetta Franceschiello, a visitor from the Laboratory for Investigative Neurophysiology - Lausanne, has kindly offered to give us a presentation on some of her interesting work which includes resolving motion signals in MRI (particularly of the eye) and computational modeling of visual illusions. Please join us for a casual, interactive session at 4pm on Thursday the 28th in YNiC, followed by refreshments and maybe even a visit to the pub. Bene's profile is here: https://www.unil.ch/line/en/home/menuinst/people/post-doctoral-fellows/bene… Best wishes, -- André ************************************************************************ André Gouws PhD Manager of Imaging Services York Neuroimaging Centre University of York The Biocentre York Science Park Heslington YO10 5NY Tel: +44 (0) 1904 435327 Fax: +44 (0) 1904 435356

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This Week at YNiC
by Lauren Welbourne 27 Nov '19

27 Nov '19

Good afternoon everyone, *IMPORTANT: Cluster Output Paths* As we indicated last week, from today it will not be possible to write to /groups from the cluster, only /scratch/groups. This step has been taken to prevent the /groups partition filling up with data which does not belong in there. If /groups fills up, all users are affected. To illustrate the point, during last week (when writing to /groups remained possible) one cluster job generated ~300Gb of data in /groups which belonged in /scratch/groups. The partition was therefore completely filled up. The consequence was that another user was unable to run their stimulus code, which depends on there being space in /groups to log output, and their scanning was delayed significantly. More generally, it is important to recognise that storage resources are limited, and that when the full capacity of partitions is reached many more people than those who wrote the data may be affected. It would be appreciated if users who anticipate writing large amounts of data, could first estimate how much data will be written and then ask us how best to accommodate the data. In general, we would also like to remind users of the importance of storing the correct data in the correct areas; this will avoid us having to take urgent remedial actions in cases where other users have been affected. *YNiC User Inductions* If you are aware of any new students/staff that will require access to YNiC and/or an IT account, they must attend a YNiC user induction. Our final induction date before the Christmas break will be Wednesday 11th December at 2pm. Please ask them to contact support(a)ynic.york.ac.uk to sign up. Hope you have a great week! Kind regards Lauren -- Lauren Welbourne, PhD Senior Research Technician lauren.welbourne(a)york.ac.uk York Neuroimaging Centre University of York Innovation Way Heslington York YO10 5NY

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29th November Level 3 safety sign off
by Antony Morland 27 Nov '19

27 Nov '19

Hello All, On Friday 29th November we are unable to sign off conditional contraindications for MRI scanning. If you have participants booked or intend to scan, please check about contraindications in advance of the scanning session so they can be signed off ahead of Friday. Best wishes Tony -- Antony Morland, PhD. Director, York Neuroimaging Centre Department of Psychology, University of York, York YO10 5DD, UK.

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Reminder: YNiC Project Presentation 4pm
by Lauren Welbourne 21 Nov '19

21 Nov '19

Good morning, This afternoon we have a project presentation from Dr Daniel Kaiser and Matt Foxwell, at *4pm* in YNiC open plan, titled: "Probing effects of scene structure on object perception using TMS". Talks are followed by refreshments. We hope to see you there! Kind regards Lauren -- Lauren Welbourne, PhD Senior Research Technician lauren.welbourne(a)york.ac.uk York Neuroimaging Centre University of York Innovation Way Heslington York YO10 5NY

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This Week at YNiC
by Lauren Welbourne 18 Nov '19

18 Nov '19

Hi everyone Here's what's going on this week at YNiC: *Project Presentation - Thursday 4pm:* This week we have a project presentation from Dr Daniel Kaiser and Matt Foxwell on Thursday 21st November at 4pm in YNiC open plan, titled: "Probing effects of scene structure on object perception using TMS". Talks are followed by refreshments. We hope to see you there! *Strike Action:* As you may be aware, UCU have announced an 8 day period of strike action commencing 25th November. As yet we are not aware of any impacts on activities at YNiC. Should any impact arise, we will make all efforts to keep you informed. *Cluster Output Paths:* >From Monday 25th November you will only be able to write data to /scratch/groups, and not straight to /groups. This is already the recommended best practice at YNiC, but we will be enforcing it from next week to reduce storage pressure on the /groups drive. Please make sure you edit any of your scripts that currently save straight to /groups. *YNiC User Inductions:* If you are aware of any new students/staff that will require access to YNiC and/or an IT account, they must attend a YNiC user induction. Our next induction date will be Wednesday 27th November at 2pm. Please ask them to contact support(a)ynic.york.ac.uk to sign up. Hope you have a good week! Kind regards Lauren -- Lauren Welbourne, PhD Senior Research Technician lauren.welbourne(a)york.ac.uk York Neuroimaging Centre University of York Innovation Way Heslington York YO10 5NY

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Reminder: Guest Speaker Dr Melanie Burke @ YNiC 4pm TODAY
by Lauren Welbourne 14 Nov '19

14 Nov '19

Hi everyone This afternoon we have a guest speaker at YNiC - Dr Melanie Burke from the University of Leeds. She will be presenting at *4pm in YNiC open plan*. Refreshments will be provided after the talk. Please find the title and abstract below: *Title:* “Inducing neuroplasticity in the prefrontal cortex: a preliminary investigation into the effects on the brain and cognition.” *Abstract:* Theta burst stimulation (TBS) is a form of repetitive transcranial magnetic stimulation (rTMS) that can be used to increase (intermittent TBS) or reduce (continuous TBS) cortical excitability. The current study used iTBS in 18 adults, to investigate the causal role of the dorsolateral prefrontal cortex (DLPFC) during the performance of four cognitive functions: attention, inhibition, sequence learning and working memory. Participants performed the cognitive tasks both before and after iTBS stimulation and functional near infra-red spectroscopy (fNIRS) was monitored throughout. Preliminary findings of brain activity before, during and after TBS, alongside eye movements responses to the cognitive tasks will be presented. We hope to see many of you there! Kind regards Lauren -- Lauren Welbourne, PhD Senior Research Technician lauren.welbourne(a)york.ac.uk York Neuroimaging Centre University of York Innovation Way Heslington York YO10 5NY

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This Week at YNiC
by Lauren Welbourne 11 Nov '19

11 Nov '19

Hi everyone Thank you to all those who came along to the Science Social last week, we had a great turn-out, learnt about DTI scans, and had enough pizza for everyone! This week we have a guest speaker at YNiC - Dr Melanie Burke from the University of Leeds will be presenting at our Thursday seminar, at 4pm in YNiC open plan. Refreshments will be provided after the talk. Please find the title and abstract below: Dr Melanie Burke - Thursday 14th November, 4pm, YNiC open plan *Title:* “Inducing neuroplasticity in the prefrontal cortex: a preliminary investigation into the effects on the brain and cognition.” *Abstract:* Theta burst stimulation (TBS) is a form of repetitive transcranial magnetic stimulation (rTMS) that can be used to increase (intermittent TBS) or reduce (continuous TBS) cortical excitability. The current study used iTBS in 18 adults, to investigate the causal role of the dorsolateral prefrontal cortex (DLPFC) during the performance of four cognitive functions: attention, inhibition, sequence learning and working memory. Participants performed the cognitive tasks both before and after iTBS stimulation and functional near infra-red spectroscopy (fNIRS) was monitored throughout. Preliminary findings of brain activity before, during and after TBS, alongside eye movements responses to the cognitive tasks will be presented. Additional notices: *YNiC User Inductions:* If you are aware of any new students/staff that will require access to YNiC and/or an IT account, they must attend a YNiC user induction. Our next induction date will be Wednesday 13th November at 2pm. Please ask them to contact support(a)ynic.york.ac.uk to sign up. *GE Projector* We have updated the projector in the GE scanner. If you are using this scanner please refer to the instructions on the wall above the stimulus PC for information on turning the projector on/off. The instructions for the projector in the Siemens scanner remain the same (for reference, see the instructions sheet above the stimulus PC, or the information on the website https://www.ynic.york.ac.uk/docs/MRIFrontPage). Hope you have a great week! Kind regards Lauren -- Lauren Welbourne, PhD Senior Research Technician lauren.welbourne(a)york.ac.uk York Neuroimaging Centre University of York Innovation Way Heslington York YO10 5NY

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Fwd: [ML-news] Modeling shift from efficient to inefficient divided attention using EEG/fMRI/MEG
by Antony Morland 08 Nov '19

08 Nov '19

Job opportunity ---------- Forwarded message --------- From: Dimitar Kazakov <dimitar.kazakov(a)york.ac.uk> Date: Fri, 8 Nov 2019, 16:17 Subject: Fwd: [ML-news] Modeling shift from efficient to inefficient divided attention using EEG/fMRI/MEG To: <arm501(a)york.ac.uk> FYI Dimitar www.cs.york.ac.uk/~kazakov Disclaimer: http://www.york.ac.uk/docs/disclaimer/email.htm ---------- Forwarded message --------- From: Nicolas Drougard <drougardn(a)gmail.com> Date: Fri, 8 Nov 2019 at 15:01 Subject: [ML-news] Modeling shift from efficient to inefficient divided attention using EEG/fMRI/MEG To: Machine Learning News <ml-news(a)googlegroups.com> *Modeling shift from efficient to inefficient divided attention using EEG/fMRI/MEG * *Advisor(s): * Frederic Dehais, https://personnel.isae-supaero.fr/frederic-dehais/ Caroline Chanel, https://personnel.isae-supaero.fr/caroline-chanel/ Daniel Callan, https://cinet.jp/english/people/2014898/ *Net salary:* 2700e per month with some teaching *Duration:* 2 years *DESCRIPTION * Optimal distribution of attention is a key issue in our everyday-life multitasking activities. It relies on a tradeoff between exploration and exploitation attentional policies to select and maintain attentional focus on the relevant streams of information while remaining alert to unexpected changes. Several studies have identified some neural correlates supporting such attentional dynamics. For instance, top-down and bottom-up types of attention are respectively delineated by the dorsal and ventral neural networks that are in close interaction with the anterior cingulate cortex for resource allocations. Efficient divided attention results in an enhancement of task relevant networks activity via cross frequency coupling in the theta and gamma band and enhancement of secondary task networks activity at different phase to that of primary task networks. However, when task demand exceeds mental capacity, the homeostasis between the ventral and dorsal pathways is disrupted, leading to the suppression of non-primary task relevant network (via increased alpha oscillations) and decreased frequency coupling between theta and gamma in primary task networks. Although this shielding mechanism can prevent from mental overload and distractions, missing critical information can have devastating consequences in real-life scenarios such as driving or operating an aircraft (eg. auditory alarms). The candidate is expected to design and conduct experiments to investigate the shift from efficient to non-efficient divided attention between the visual and the auditory modality. These experiments will be conducted 1) in the lab using fMRI and high-density 2) under highly ecological conditions with portable EEG. The candidate is expected to perform state-of-the-art analyses including effective connectivity and to apply inverse reinforcement learning (IRL) technics to 1) estimate the efficient (optimal) and non-efficient (sub-optimal) policies with respect to best expected distribution of attention. 2) to predict long-term attentional efficiency. The ideal candidate will have a strong background in Neurosciences, brain imaging (EEG or/and fMRI/MEG), signal processing, artificial intelligence for automated learning and planning. She/he will have to work in strong collaboration with the three other researchers (2 PhD students, 1 post doc) funded by the ANITI program. This research will be conducted within the stimulating environment of Neuroergonomics lab at ISAE-SUPAERO (25 researchers), the Artificial and Natural Intelligence Toulouse Institute. The candidate will have the opportunity to have a long stay in Cinet (Osaka/Japan) at Daniel Callan’s research department to conduct the fMRI or MEG experiment. *References* • Durantin, G., Dehais, F., Gonthier, N., Terzibas, C., & Callan, D. E. (2017). Neural signature of inattentional deafness. Human brain mapping, 38(11), 5440-5455. • Dehais, F., Rida, I., Roy, R. N., Iversen, J., Mullen, T., & Callan, D. A pBCI to Predict Attentional Error Before it Happens in Real Flight Conditions. • Tombu, M. N., Asplund, C. L., Dux, P. E., Godwin, D., Martin, J. W., & Marois, R. (2011). A unified attentional bottleneck in the human brain. Proceedings of the National Academy of Sciences, 108(33), 13426-13431. • Doesburg, S. M., Roggeveen, A. B., Kitajo, K., & Ward, L. M. (2007). Large-scale gamma-band phase synchronization and selective attention. Cerebral cortex, 18(2), 386-396. • Arora, Saurabh and Doshi, Prashant (2018). A survey of inverse reinforcement learning: Challenges, methods and progress. arXiv preprint arXiv:1806.06877 *APPLICATION PROCEDURE* Formal applications should include detailed cv, a motivation letter and transcripts of bachelors' degree. Samples of published research by the candidate and reference letters will be a plus. Applications should be sent by email to first_name.name(a)isae.fr More information about ANITI: https://aniti.univ-toulouse.fr/ -- You received this message because you are subscribed to the Google Groups "Machine Learning News" group. To unsubscribe from this group and stop receiving emails from it, send an email to ml-news+unsubscribe(a)googlegroups.com. To view this discussion on the web visit https://groups.google.com/d/msgid/ml-news/5799d6d7-59b4-449d-80eb-de0d553d1… <https://groups.google.com/d/msgid/ml-news/5799d6d7-59b4-449d-80eb-de0d553d1…> .

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YNiC Science Social today 4pm
by Lauren Welbourne 07 Nov '19

07 Nov '19

Hi everyone This is a reminder that our first Science Social will be happening today at 4pm in YNiC Open Plan. Come and play with some diffusion data, and we'll provide pizza! Hope to see you later, Kind regards Lauren -- Lauren Welbourne, PhD Senior Research Technician lauren.welbourne(a)york.ac.uk York Neuroimaging Centre University of York Innovation Way Heslington York YO10 5NY

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This Week at YNiC
by Lauren Welbourne 04 Nov '19

04 Nov '19

Hi everyone Here's what's going on this week: *YNiC Monthly Science Social:* We're kicking off the first Science Social session with a talk by Andre on DTI scanning; this should be a really interesting introduction to this type of scan, plus we'll be providing pizza, so we hope to see many of you there! The session will be held in YNiC open plan this *Thursday 7th Nov at 4pm*. For a list of the upcoming Thursday sessions, please visit https://www.ynic.york.ac.uk/events/thursday-sessions. *Level 0 operator training:* The upcoming Level 0 training session this week is now fully booked. Our next scheduled training session will take place on *Wednesday 11th December at 2pm-4pm*. Please note that users requesting Level 0 training should be a PhD, RA/Postdoc, or staff, and should already have a project proposal submitted to YNiC. Please email support(a)ynic.york.ac.uk if you have any questions or wish to book on to this session, and include which scanner you wish to be trained on. *Please note that sessions are limited to 4 trainees, which will be allocated on a first-come first-served basis. Training must be booked at least a week before the session date, in order to reserve the scanner booking.* *It is recommended that all Level 0 operators attend an 'Emergency First Aid at Work' one-day training course.* This is currently a requirement for Level 1 operators, and will also be required for Level 0 operators soon - we will enforce this requirement from March 2020, to give current Level 0 users time to arrange the training course. Courses should be organised by the project PI with a relevant training provider (e.g. St Johns Ambulance, Red Cross); these providers can also run group training sessions (8 or more people) on-site, so labs may wish to coordinate their operators to all attend training on the same day, at a location of your choice. *YNiC User Inductions:* If you are aware of any new students/staff that will require access to YNiC and/or an IT account, they must attend a YNiC user induction. Our next induction date will be Wednesday 13th November at 2pm. Please ask them to contact support(a)ynic.york.ac.uk to sign up. *Christmas Closure:* We'd like to give you advance warning that YNiC will be closed to users from the week commencing 16th December, and will re-open in the New Year, on the 3rd of January. Hope you have a great week. Cheers Lauren -- Lauren Welbourne, PhD Senior Research Technician lauren.welbourne(a)york.ac.uk York Neuroimaging Centre University of York Innovation Way Heslington York YO10 5NY

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ynic-users November 2019