Meetings & Workshops at mmc2019

Monday 1 July 2019 - Workshops

Three mmc2019 workshops took place from 1330 - 1630 on Monday 1 July in Manchester Central. They are a great way to learn the most up-to-date tips and techniques to help with your research.

The three confirmed workshops were:

ImageJ Workshop (Cobden Rm 3)

Scientific Organiser: Dr Kees Straatman

ImageJ is a powerful public domain image processing and analysis program written in Java, freely available for download from the internet. Fiji is an ImageJ distribution focussed on the visualisation and analysis of microscope images in 2D, 3D, 4D and 5D. 

This workshop will give a brief introduction on the use of ImageJ/Fiji and will account for all learning styles as a mix of lectures, demonstrations and hands-on sessions.

Please bring your own fully charged laptop with Fiji installed.

SPM Workshop (Cobden Rm 4)

Scientific Organisers: Professor Sonia Contera, Dr Charles Clifford & Dr Oleg Kolosov

This workshop will provide an advanced in depth introduction to scanning probe microscopy at a level suitable for graduate students who have started using or developing SPM in their own research, and for experienced electron and optical microscopists who would like to know how they could use SPM. The workshop will cover imaging and force measurements in atomic force microscopy, the most ubiquitous form of SPM, with an emphasis on the practical knowledge and tips required for effective application in the areas of material science, energy materials, biomedicine and will be delivered by experienced and renowned practitioners in the respective areas.

It will be an opportunity to put your SPM knowledge on a solid footing, as well as to make valuable networking connections. The workshop will include presentations and associated hands on practical demonstrations, supported by SPM instrument manufacturers. There will also be ample opportunity to discuss your specific applications and problems with the expert presenters, and during the conference at the learning zone, so do please bring your data / experimental problems if you would like more specific advice. A certificate will be awarded upon completion of the workshop.

EMAG Workshop - Deep Learning (Cobden Rm 2)

Scientific Organiser: Dr Donald MacLaren

With recent advances in detector and camera technologies, the rapid acquisition of images, diffraction patterns or spectroscopic signals is propelling advanced electron microscopy to enter a new phase. The practice of working with a few images or spectra is increasingly been replaced by rapid acquisition and analysis of large datasets of images and multi-dimensional spectra, with gigabyte dimensions. Examples are time-lapse movies of in-situ experiments, systematic images series in ptychography, exit wave reconstructions and tomography, or hyperspectral imaging for elemental and functional localization. An emerging trend is to take advantage of increased hardware capabilities and the equally rapid advance in data science to analyse these huge datasets more efficiently and to providing statistically meaningful information about the analysed materials to yield insights that were not previously possible.

This workshop will introduce the concepts, applications and practical details of applying some of these data science techniques to the analysis of microscopy images and spectra. It will begin with an overview by Prof. Paul Rees of Swansea University, who will demonstrate applications of data science in image analysis. This will be followed by a hands-on demonstration of deep learning for image, text and sound analysis to provide a taste of building your own machine learning model for pattern recognition, facilitated by Dr Coorous Mohtadi, Deep Learning Engineer at Mathworks. A web-based version of MATLAB will be provided for the participants of the workshop. All you need is an internet ready laptop computer and a willingness to learn something new. 

The workshop is suitable for microscopists who are interested in finding out what deep learning is and how it might be useful to their own research.

Monday 1 July 2019 - Meetings

The Microscience Microscopy Congress brings together a number of smaller meetings, allowing you to meet and discuss with colleagues working in your field as well as with cross-disciplinary peers, all at the same event.

As part of mmc2019 these included:

BioImagingUK Meeting - Monday 1 July (Central 3, 4)

Scientific Organiser: Prof. Maddy Parsons, King's College London

This meeting will provide an opportunity for the UK Bioimaging community to discuss priorities and strategies in training, development, careers and ways to share knowledge across different disciplines. The session will consist of short talks from members of the BioImagingUK organising committee, BBSRC, and industrial/institute collaboration partners (Royce, RFI, Faraday) to update on progress, new opportunities and initiatives. There will be interactive Q+A sessions to encourage discussion and enable emerging priorities and ideas to be highlighted. The meeting is open to everyone with an interest in bioimaging.


1330: Future plans for BioimagingUK - Maddy Parsons
1345: International links with BioimagingUK - Jason Swedlow (Univ Dundee)
Euro-BioImaging - Antje Keppler (Euro-BioImaging)
BioImaging North America - Simon Watkins (BINA)
1410: General discussion and Q+A
1425: Building links between BioimagingUK and RFI - Angus Kirkland 
1440: Building links between BioimagingUK and Royce - Ian Wimpenny
1455: Coffee/tea break
1520: Building links between BioimagingUK and Faraday Inst - Nigel Browning 
1535: BioImage Data Ecosystem - Ugis Sarkans (EMBL-EBI)
1550: UKRI Bioimaging Strategy – Daniela Hensen (BBSRC) and Charlotte Inchley (MRC)
1615: Discussion, feedback, priorities for next meeting and Q+A

Early Career Pre-Congress Symposium - Monday 1 July (Central 5, 6, 7)

Scientific Organiser: Rebecca Thompson, University of Leeds

The RMS Early Career Pre-Congress Symposium is an event for early career microscopists (students and post docs) to network and present their work ahead of the main mmc conference. We have accepted abstracts from early career researchers to present their research, with a focus on introducing the microscopy techniques used in their work. A prize for the best early career talk will be presented by Michelle Peckham, President of the RMS.

The meeting will also include a keynote lecture, an introduction to the newly-formed RMS Early Career Sub Group, and a networking activity. Overall this will be a fantastic opportunity to meet fellow microscopists ahead of mmc2019, and we hope to see you there.


1400: Two Longtime Passions: Membrane Biology and Electron Microscopy - Keynote Speaker, Wanda Kukulski (MRC Laboratory of Molecular Biology)
1420: Selected Abstracts
1500: Coffee Break with Networking Activity and Prize
1530: Selected Abstracts
1605: How to Publish your Paper - Peter Nellist
1620: RMS Student Council - Colum O'Leary
1625: Close and Best Talk Prize Presentation
1630: Drinks Reception

SuperSTEM User Forum - National Research Facility Update - Monday 1 July, 1130 – 1330 (Central 5, 6, 7)

This informal pre-congress session will consist of brief recent scientific highlights from the facility, alongside an update on facility upgrade plans and scheduled instrumentation improvements.

These include the imminent installation of an advanced new spectrometer which promises to improve the energy resolution of SuperSTEM3 for EELS to below 5meV, off a high solid angle EDXS detector for SuperSTEM2, and the procurement of an advanced focused ion beam and sample preparation equipment to assist our users and collaborators in getting the most from their facility beamtime.

Current and prospective users will be able to directly discuss projects and access procedures with facility staff.

Tuesday 2 July 2019 - Meeting

Quality Control Focussed Interest Group Meeting

Scientific Organiser: Alex Laude, Newcastle University

With this inaugural Quality Control FIG Meeting we hope to kick-start discussions within the UK light microscopy community to address the issue of microscope QC initially focussing on widefield and confocal platforms but later expanding to super-res.  The aim is to agree on what QC measurements to make, with what standard samples at what frequency to make them.  We hope to incorporate standard QC sample manufacturers (Argolight, GATTAquant & Alex Corbett (Uni of Exeter)) as well as microscope manufacturers and image analysists.  The goal is firstly to agree on QC practices but also automate the process of image capture, analysis and archive.   To succeed will require a community effort and buy-in from all microscope manufacturers.

This meeting is free to attend, there is no need to book in advance nor register for the conference. It will take place from 1600 - 1800 on Tuesday 2 July in Workshop 3, in the Exhibition Hall.

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