March 2020 - FILM-Users - imperial.ac.uk

[FILM-Users 00903] FILM image analysis help during college closure
by Bruckbauer, Andreas 23 Mar '20

23 Mar '20

Dear FILM-users, We hope you are all safe and well and able to work remotely. The film team is adjusting to this new way of working and we already got a number of requests from users who are writing up results. We will continue to give advice on image analysis - for help connecting to scratch see at the end - - For simple questions, just continue to send an email either to one of us or to film-service(a)imperial.ac.uk<mailto:film-service@imperial.ac.uk> - If you want a bit more help, please request 'Remote Help with Image Analysis<https://ppms.eu/imperial/req/?pf=2&training=true&form=71>' on our PPMS booking system under 'requests, this allows us to distribute requests to the members of the FILM team and process a queue of requests in the order they come in. Please also indicate the location of an example image on our scratch2 server. - We might need to charge staff assistance (£29 / hour) for image analysis help, but plan to keep the first two hours free of charge for data acquired using our microscopes. The facility charges, including a large part of our salaries, are recovered from the microscope usage charges, when the microscopes are not booked, the facility has no income. - Image analysis help could be done as step-by-step guides sent via e-mail and/or or additional telephone sessions. When screen sharing is necessary, Skype, Zoom or maybe Microsoft teams might be possible, but this will depend on the user's and team member's individual preferences and we have to experiment a bit with these. - FILM has four remote desktop workstations with powerful processors and lots of RAM, one of them runs the Huygens deconvolution software. They all have Fiji installed, this might be an option if you have larger files which you cannot analyze with your own computer. However the graphic cards on these machines have some limitations, they are not suitable for 3D rendering, please ask FILM for access and further details. - The Royal Microscopical Society has set up a web page for online resources: https://www.rms.org.uk/study-read/news-listing-page/online-microscopy-talks… Connecting to scratch from home: When you are not on the college network, you would need to use a VPN connection to connect your home computer directly to scratch, use IC\username (your own user name) to connect. See ICT webpages on how to connect to a VPN: https://www.imperial.ac.uk/admin-services/ict/self-service/connect-communic… Another option is to remotely connect to your college computer (if you have one), this should work without VPN, when the windows remote desktop is configured correctly as described here: https://www.imperial.ac.uk/admin-services/ict/self-service/connect-communic…. You might need to wake up the computer first, but ICT has ICT have turned off 'power save mode' so your work PC will not go to sleep while you are working remotely if you needed to leave it running. You might be able to copy and paste files from the remote connection directly to your home PC (this might take a while) or save to e.g. your One Drive. The file exchange is a way to send large files to collaborators: https://www.imperial.ac.uk/medicine/study/e-learning/blackboard-access-and-… All the best! Andreas, Steve and Alice ---------------------------------------------------- Dr Andreas Bruckbauer FILM facility manager Sir Alexander Fleming Building South Kensington Campus Imperial College London Exhibition Road London, SW7 2AZ Working remotely from home a.bruckbauer(a)imperial.ac.uk<mailto:a.bruckbauer@imperial.ac.uk> http://www.imperial.ac.uk/medicine/facility-for-imaging-by-light-microscopy/ ----------------------------------------------------

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[FILM-Users 00902] !!! FW: URGENT ACTION - Closure of SAF Building today
by Bruckbauer, Andreas 18 Mar '20

18 Mar '20

Dear all – !!! SAF building closed today from 6 pm!!! Dear PIs I received communications just now: The College leadership has taken the decision to close access to the SAF building from tonight – 6pm. This is obviously somewhat earlier than we were expecting. Could you please ensure that operations are completed and wound down safely, and SAF vacated by this evening. Could you please liaise with your teams to close down their activities, shut down incubators, tidy up the labs and take care with perishable items in the open plan desks? Mandy is organizing a rota for liquid nitrogen and freezer alarms to take care of our stocks. For those of you that required access, I sent the information to NHLI to add to keep you cards working. All other access will be cancelled until further notice. College is being very strict that only essential work is to be carried out. Kind regards Vania Vania Braga, PhD, FRSB Head, Cardio-Respiratory interface Section Reader in Cell-cell Adhesion Signaling National Heart and Lung Institute Faculty of Medicine Imperial College London Sir Alexander Fleming Building SW7 2AZ ' +44 20 7594-3233 (office) +44 20 7594-3109 (lab) Ê +44 20 7594-3100 v.braga(a)imperial.ac.uk<mailto:v.braga@imperial.ac.uk> [cid:image002.png@01CE1B2E.EE446B70] LinkedIn: https://www.linkedin.com/pub/vania-braga/4/ab5/aa8 Google Scholar: http://scholar.google.co.uk/citations?user=p8si4QkAAAAJ&hl=en Web site: http://www.imperial.ac.uk/AP/faces/pages/read/Home.jsp?person=v.braga&_adf.…

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[FILM-Users 00901] microscopy experiments with postdoc help
by Bruckbauer, Andreas 18 Mar '20

18 Mar '20

Any postdoc who can help Nita? The deadline for the funding application is soon, but the research itself will occur after things get running again (if she gets awarded, which isn't announced until the end of April) - Andreas ---------- Hi, I am a postdoc in the DoLS, and I am applying for a small fund from DoLS to generate some preliminary data for my independent project. One of the requirements of the funding is that I have a plan to exchange or gain skills from another postdoc in DoLS. It wouldn't take much of your time, you would likely advise me on a few experiments and perhaps make some suggestions as I analyze my data. My goal is to assess cell invasion of quantum-dot labeled protein and also quantify apoptosis using a kit that fluorescently labels apoptotic cells. I'll be using a monolayer of mammalian cells, and am thinking of using widefield microscopy. Please contact me directly via email (nita.shah(a)imperial.ac.uk<mailto:nita.shah@imperial.ac.uk>) if you'd be interesting in helping me out, preferably by Friday this week, since the deadline is fast approaching. Thank you, -Nita

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[FILM-Users 00899] FW: COVID-19: A message for all of NHLI
by Bruckbauer, Andreas 18 Mar '20

18 Mar '20

Dear FILM-users, FILM will follow the NHLI guidance (see below) regarding COVID-19: FILM staff will work from home, or remotely, from tomorrow where we can. Please contact us using email if you need help. Those needing to safely shut down laboratories should aim to work remotely by Thursday of this week. The only exception after that will be for essential activity that needs to be completed, such as animal experiments that have already been initiated, maintenance of vital cell lines and cultures/clinical samples already in culture. No new experiments should be started at present. If you think your work should be an exception, please seek approval through your PI/supervisor and Head of Section. You must of course follow the usual protocols for lone working. Please take care and stay safe! Andreas ---------------------------------------------------- Dr Andreas Bruckbauer FILM facility manager Sir Alexander Fleming Building South Kensington Campus Imperial College London Exhibition Road London, SW7 2AZ SAF 4th floor, open space desk 401 +44 (0)20 7594 2023 a.bruckbauer(a)imperial.ac.uk http://www.imperial.ac.uk/medicine/facility-for-imaging-by-light-microscopy/ http://www.imperial.ac.uk/people/a.bruckbauer ---------------------------------------------------- From: NHLI communications [mailto:nhlicomms@imperial.ac.uk] Sent: 17 March 2020 15:23 To: Bruckbauer, Andreas <a.bruckbauer(a)imperial.ac.uk> Subject: COVID-19: A message for all of NHLI ‌ ‌ ‌ ‌ ‌ Dear NHLI, Following yesterday’s Government advice and the all College communication from Alice and Ian, I would like confirm that all our community at NHLI should now be moving to remote working with minimal activity on campus. I know that preparations for this have already been underway for some time, so thank you for all your efforts so far. We are asking everyone to work from home, or remotely, from tomorrow where they can. Those needing to safely shut down laboratories should aim to work remotely by Thursday of this week. The only exception after that will be for essential activity that needs to be completed, such as animal experiments that have already been initiated, maintenance of vital cell lines and cultures/clinical samples already in culture. No new experiments should be started at present. If you think your work should be an exception, please seek approval through your PI/supervisor and Head of Section. You must of course follow the usual protocols for lone working. This is a very difficult time and we must all support each other. I therefore urge you to communicate as much as possible whilst working remotely. Please set up regular group research meetings and journal clubs, student supervision calls, management and research meetings through Microsoft Teams, Skype or similar, not forgetting calls just to catch up, share experiences and provide moral support. Best practice for working from home will follow. Please don’t feel isolated and be aware we still have our team of Mental Health First Aiders available and access to Confidential Care. Please contact your supervisor or line manager if you have any concerns, and also regularly look at the College COVID-19 webpages which are updated frequently. The latest Government advice on who should self-isolate can be found online. With my best wishes to all, Justin (on behalf of Edwin Chilvers) Professor Justin Mason Co-lead of Cardiovascular Division at NHLI This email was sent to a.bruckbauer(a)imperial.ac.uk from nhlicomms(a)imperial.ac.uk Receive in Plain Text

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[FILM-Users 00898] Coronavirus update - FILM facility
by Bruckbauer, Andreas 16 Mar '20

16 Mar '20

Dear FILM-users, The spread of COVID-19 is causing concern everywhere and the first priority is the health and safety of our users and staff. We are currently discussing measures to reduce the risk of infection while using the microscopes. - Essential: Follow the College guidance regarding self-isolation in case you show symptoms: https://www.imperial.ac.uk/about/covid-19/ Anyone with a 'new, continuous' cough or a high temperature (37.8C or 100F and above) is advised to self-isolate for 7 days. Do not use microscopes in this case! - Washing hands with soap is essential, at SAFB we have a hand wash sink in room 410 to which everybody has access. At Hammersmith you would need to use the lab handwash sinks. - Microscope parts like focus knobs, computer keyboards and mice are touched by many people during the day, we have 70% ethanol spray bottles, blue paper towels and facial tissue which you can use to clean these parts before and after use. We will make extra rounds to clean microscopes! - You can use gloves at the microscopes, make sure that you are using clean gloves, not the ones with which you are handling your samples! We will try to supply a pack of gloves with each microscope as long as we can get stocks. - We might remove the eye-cups from the oculars as they can pose a transmission risk and are difficult to clean. The normal distance from the ocular to the eyes is about 10 mm, so with removed eye-cups you can keep a safe distance. Watch out that you don not scratch your glasses or the oculars. Oculars can be cleaned with facial tissue and 70% ethanol. Please take care and stay safe! Best wishes Andreas ---------------------------------------------------- Dr Andreas Bruckbauer FILM facility manager Sir Alexander Fleming Building South Kensington Campus Imperial College London Exhibition Road London, SW7 2AZ SAF 4th floor, open space desk 401 +44 (0)20 7594 2023 a.bruckbauer(a)imperial.ac.uk<mailto:a.bruckbauer@imperial.ac.uk> http://www.imperial.ac.uk/medicine/facility-for-imaging-by-light-microscopy/ ----------------------------------------------------

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[FILM-Users 00897] FW: Permanent Senior Microscopist Position in Southampton, UK
by Bruckbauer, Andreas 11 Mar '20

11 Mar '20

FYI: Great opportunity for a Microscopist in Southampton: Senior Microscopist: Head of Microscopy Group University of Southampton; Cancer Sciences Salary: £38,460 to £48,677 Per annum Full Time Permanent Application instructions: https://jobs.soton.ac.uk/Vacancy.aspx?id=22856&forced=2 Closing Date: Sunday 22 March 2020 Applications are invited for the above position in the laboratory of Professors Ober and Ward who are relocating their research group from the USA. Their interdisciplinary research program is dedicated to the development of advanced microscopy approaches, in particular single molecule methods and subcellular trafficking studies. These approaches are being applied to the development of novel antibody-based therapeutics that, to date, have led to several new therapeutics that are currently in advanced clinical trials. Their research is supported by major grants from the Wellcome Trust, Cancer Research UK and collaborating biopharma companies. Over recent decades the research group has pioneered several new microscopy approaches, in particular single-molecule technologies, such as multi-focal plane microscopy for the study of three dimensional subcellular dynamics of proteins. The new microscopy laboratory will consist of several microscope systems in custom-built space. The envisaged techniques include single molecule microscopy, primarily three-dimensional approaches, using multi-focal plane microscopy. A key responsibility is the continued development of advanced microscopy techniques, including multifocal plane microscopy, remote focusing approaches for single molecule microscopy etc. You will also develop and use multiphoton and confocal techniques, including fluorescence lifetime approaches, in addition to more routine methods such as multi-color live-cell microscopy in combination with TIRF illumination. The microscopes will include commercial systems and systems built in-house. You will help to build a cutting edge microscopy laboratory containing self-built and commercial systems. The microscopy group will include several post-doctoral fellows and Ph.D. students, who will also be engaged in methods development and advanced experimentation. A further responsibility will be the oversight and maintenance of the microscopy equipment in the group. You will be an efficient/capable manager able to carry out your own research projects and oversee laboratory members in a highly interdisciplinary setting. The position requires significant, independent interactions with collaborators within and outside the university. You will have a major impact on the scientific mission of the laboratory by carrying out and supervising advanced microscopy research projects related to the use of existing methods and instrumentation development. You will be involved in applying state-of-the-art technologies to cutting edge biological projects, including the setup and maintenance of the microscopes for use by the research group/collaborators. The post is located in the Centre for Cancer Immunology at the Southampton General Hospital, a newly constructed research building that is the result of a significant fund-raising campaign. The Centre builds on a 40 year history of pioneering immunology and cancer research at Southampton. It is the first dedicated cancer immunology centre in the UK that brings the complete research pipeline under one roof: from pioneering discovery science to applied research and preclinical modelling and crucially onto first-in-human clinical trials and beyond. It is home to world-class research facilities, state-of-the-art scientific laboratories and a Clinical Trials Unit. This position is one of at least 20 new research and other staff who will work with existing investigators to build on the exciting progress already made in the field of cancer immunology. While direct experience of the role described in the job description is not a prerequisite, scientific experience in microscopy and optics at Ph.D. level is required. Expertise in single molecule microscopy and cellular microscopy is desirable. You will possess relevant academic qualifications/work experience, good IT skills, ability to plan/organise your workload, use your initiative, work well under pressure and communicate effectively/professionally with a range of stakeholders within and outside the organisation. This will be an ideal position for example, for an applicant, with extensive experience in optics at the post-doctoral level, wishing to continue their excitement for research in combination with the managerial components of this position. Informal enquiries should be directed to Professor Raimund J. Ober, r.ober(a)soton.ac.uk<mailto:r.ober@soton.ac.uk> .

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[FILM-Users 00896] FW: PDRA position CLOSING 8 March - spatial variation of the gut microbiome
by Bruckbauer, Andreas 04 Mar '20

04 Mar '20

FYI , interesting postdoc position: From: Riglar, David T Sent: 04 March 2020 11:56 To: Bruckbauer, Andreas <a.bruckbauer(a)imperial.ac.uk> Subject: PDRA position CLOSING 8 March - spatial variation of the gut microbiome Dear Andreas, could you please forward this opportunity to the FILM users list? Thanks! Dear Friends and Colleagues I have an opening in my lab for a postdoctoral research associate to work on understanding spatial variation in gut microbiome function during inflammatory disease (http://www.imperial.ac.uk/jobs/description/MED01526/research-associate) The project will broadly utilise a combination of synthetic biology, imaging and sequencing approaches to investigate animal models of disease. The contract is for 2 years in the first instance, with possibility for extension. I would be very grateful if you could forward this to your networks and alert any appropriate candidates. Applications close 8 March. Best regards David Dr. David T Riglar PhD Group Leader Wellcome Trust & Royal Society Sir Henry Dale Research Fellow Department of Infectious Disease Imperial College London Room 260 Sir Alexander Fleming Building | South Kensington Campus | London SW7 2AZ +44(0)20 7594 1427 | http://www.imperial.ac.uk/people/d.riglar

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[FILM-Users 00895] Biophysics and Imaging experts
by Bruckbauer, Andreas 02 Mar '20

02 Mar '20

FYI, please see the positions advertised by Yu Ye: --------------------------------------------------------------------- From: Ye, Yu <yu.ye1(a)imperial.ac.uk<mailto:yu.ye1@imperial.ac.uk>> Sent: 28 February 2020 16:09 To: Li, Bing <b.li(a)imperial.ac.uk<mailto:b.li@imperial.ac.uk>> Subject: Re: Plasma cleaner? Stem cell / neuroscience http://www.imperial.ac.uk/jobs/description/MED01726/research-associate Biophysics / optics http://www.imperial.ac.uk/jobs/description/MED01727/research-associate Biochemist / Cell Biologist http://www.imperial.ac.uk/jobs/description/MED01728/research-associate -- Yu Ye, PhD (Cantab) Principal Investigator, UK Dementia Research Institute Lecturer, Department of Brain Sciences, Imperial College London Tel | +44 (0)20 759 45484 Address | Sir Michael Uren Building, 86 Wood Lane, London W12 0BZ Web | www.imperial.ac.uk/people/yu.ye1<http://www.imperial.ac.uk/people/yu.ye1> | www.ukdri.ac.uk/team/yu-ye<http://www.ukdri.ac.uk/team/yu-ye> [cid:image001.jpg@01D5F0A0.81F183A0] ---------------------------------------------------- Dr Andreas Bruckbauer FILM facility manager Sir Alexander Fleming Building South Kensington Campus Imperial College London Exhibition Road London, SW7 2AZ SAF 4th floor, open space desk 401 +44 (0)20 7594 2023 a.bruckbauer(a)imperial.ac.uk<mailto:a.bruckbauer@imperial.ac.uk> http://www.imperial.ac.uk/medicine/facility-for-imaging-by-light-microscopy/ http://www.imperial.ac.uk/people/a.bruckbauer ----------------------------------------------------

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