MICA: Nanoscopy Oxford (NanO): Novel Super-Resolution Imaging Applied to Biomedical Sciences

Lead Research Organisation: University of Oxford
Department Name: Biochemistry

Abstract

Over the past decade entirely new technologies have been developed that bypass the limits of light microscopy allowing researchers to visualise, for the first time, intracellular structures, the cell surface and the extracellular space at the nanometre scale in both fixed and living cells. This has created entirely new possibilities to investigate normal cell structure and function. The principal aim of this application is to fully integrate and coordinate multidisciplinary groups (biologists, physicists, engineers and chemists) across the Oxford campus, to develop super-resolution microscopy (SRM) and to make this available to a broad biomedical community (e.g. WIMM, Dunn School, WTCHG, Biochemistry and DPAG) to generate new insights into normal biological processes and how these are perturbed in human diseases. We propose that this new consortium is called Nanoscopy Oxford (NanO).

Over the past few years several biomedical institutes and Departments in Oxford have made commitments to developing imaging as a key infrastructure for supporting their scientific programmes. In addition these departments and institutes have contributed to an overarching strategic vision for imaging in Oxford under the leadership of the Micron initiative. This has enabled the Oxford campus to establish a wide range of conventional imaging and to take the first steps in developing SRM. Recruitment of scientific leaders in this area (e.g. Davis, Eggeling, Schermelleh) and their collaborations with international leaders in this area of research (Hell, Sedat, Jakobs) have placed our consortium in strong position, with further investment, to become a leading UK and international centre for next generation imaging.

Recognising that no single approach is suitable for all applications, we will build upon current imaging facilities and associated management structures in Oxford to establish, extend and optimise the full range of approaches to SRM (STED, RESOLFT, 3DSIM and PALM/STORM). Furthermore, we will adapt each type of microscopy to maximise our ability to perform nanoscale imaging, developing new approaches for multi-colour and three-dimensional imaging. We will improve the quality of imaging in thick specimens by reducing aberrations, improving fluorescent labels for live-cell SRM imaging, and we will speed up the imaging process and develop new methods for analysis of the super-resolved images. By streamlining these techniques we will bring complex technologies, not yet commercialised, within the reach of biomedical researchers with limited experience of SRM.

The consortium has well established programmes in teaching and training biomedical researchers in the use of all forms of microscopy and therefore is well placed to become a training facility for the UK in this area. Realising this vision including technical development, adoption of techniques to analyse key cell biological questions and then applying them to biomedical issues (fully integrating Micron and NanO) will make Oxford an international centre of excellence in the development of next generation microscopy and its application to the analysis of human disease.

Technical Summary

The past decade has seen a major revolution in optical microscopy, with new methods surmounting the conventional diffraction limit in spatial resolution. Super-resolution microscopy (SRM) techniques such as stimulated emission depletion (STED), REversible Saturable/switchable Optical Linear (Fluorescence) Transition (RESOLFT), (Saturated) Structured Illumination Microscopy ((S)SIM) and (fluorescence) PhotoActivation and Localization and (direct) Stochastic Optical Reconstruction microscopy (PALM/(D)STORM) permit imaging of living cells with increasing resolution and are opening a broad frontier in the study of cellular functionality. Each of these methods has distinct advantages and disadvantages for imaging different types of specimen. The principle aim of this proposal is to make all developments in SRM available to the biomedical community in Oxford to enable unique insights in cellular research. We already have a well-established infrastructure to support advanced optical imaging within the University with the Micron Advanced Bioimaging Unit and planned facilities in the WIMM and at WTCHG. There are two SIM platforms in Micron but we will establish STED and RESOLFT imaging at the WIMM and provide access to a home-built PALM/STORM system in Micron.

SRM techniques have enormous potential, yet their utility is still restricted by a number of inherent limitations. A second aim is to grasp this opportunity to unite biologists with physicists, engineers and chemists to drive further developments in the technology of SRM imaging. We will develop:
1. STED and RESOLFT approaches in Oxford.
2. SSIM with fast image acquisition at a spatial resolution of 50nm for 3D imaging.
3. adaptive optics for the correction of aberrations encountered when performing SRM at depth within tissue.
4. live PALM/STORM and FRET.
5. new image analysis and control algorithms for the super-resolved SRM data.
6. fluorescent labels for live-cell SRM.

Planned Impact

Nanoscopy Oxford (NanO) will be a hub for advanced and innovative imaging nationally and internationally, by fostering not only an interactive and collaborative environment within Oxford University, but also developing much closer links between different research groups in academia and Industry in the UK and abroad. This strategic vision for the future will continue to keep Oxford at the international forefront of this increasingly exciting phase of biomedical basic and translational research.

As explained in the "academic beneficiaries' section, we can be certain that the technological developments and facilities that we plan to establish throughout the next five years will be available to and benefit biomedical researchers worldwide. The following groupings will benefit from the technology development and from specific discoveries that will be made by applying the new technology to leading edge biology.

1) All researchers working at the interdisciplinary interface between physics and biology, developing next generation optical microscopes and methods of super-resolution microscopy (SRM). The progress we envisage will provide insights into future developments and applications.
2) All biological researchers applying advanced imaging methods at the limit of what is currently possible by giving them access to new technology and/or by directing their research with published insights gained within NanO.
3) Chemists and companies working on new fluorescent labels such as organic dyes and fluorescent proteins and labelling protocols, which are optimized for SRM and optical microscopy.
4) Companies developing optical microscopy by improving their basic technology and allowing them to stay highly competitive. For example: Leica Microsystems, Carl Zeiss Microscopy, Nikon Microscopy, Olympus Microscopy, Applied Precision/GE Healthcare, Perkin Elmer, PicoQuant and Abberior Instruments.
5) Companies performing biomedical research and high-throughput-screening based on optical fluorescence microscopy by offering them novel, improved technology platforms. For example: Pharmaceutical and biotechnology companies such as GlaxoSmithKline, Pfizer, Novartis, Lilly, Evotec. Our initiative will contribute to ensuring a high educational level for the future workforce of this important sector of the economy.
6) UK research in general by establishing an internationally competitive platform for next generation optical microscopy and attracting the brightest minds from all parts of the globe.
7) Contribution to public health and public welfare by gaining further insight into the mechanisms underlying normal cell biology and human disease. We anticipate that application of SRM imaging research in crucial areas of experimental medicine (such as immunology, haematology and neuroscience) will lead to greater insights into the mechanisms causing many human diseases hence providing opportunities to identify diagnostics and therapeutics.
8) Enhancing the knowledge-based economy by improving the training of highly skilled researchers in the development and applications of the new technology.
9) Attracting new industrial R&D investment in the UK by enhancing cutting-edge research at UK universities and research institutes.

Publications

10 25 50
 
Description Member of Wellcome Trust Panel: Strategic Award for Large shared Equipment
Geographic Reach National 
Policy Influence Type Participation in advisory committee
 
Description Wellcome Trust strategic review of funding policy for advance microscopy infrastructure
Geographic Reach National 
Policy Influence Type Participation in advisory committee
Impact Led to the Wellcome Trust funding more microscopy development and infrastructure
 
Description Advancing Image Analysis at the Wolfson Imaging Centre Oxford
Amount £45,000 (GBP)
Organisation University of Oxford 
Department E P A Cephalosporin Fund
Sector Charity/Non Profit
Country United Kingdom
Start 09/2016 
End 04/2018
 
Description BBSRC Research grant
Amount £167,308 (GBP)
Funding ID BB/L00433X/1 
Organisation Biotechnology and Biological Sciences Research Council (BBSRC) 
Sector Public
Country United Kingdom
Start 01/2013 
End 01/2017
 
Description CE - EP Abraham Cephalosporin Trust Fund 2015 entitled: BioISCAT: Biomedical application of novel fast molecular tracking
Amount £74,200 (GBP)
Organisation University of Oxford 
Department E P A Cephalosporin Fund
Sector Charity/Non Profit
Country United Kingdom
Start 01/2015 
End 01/2016
 
Description CE - MRC project grant (MR/L018942/1): The impact of IFTIM3 genetic variation on Influenza virus infection, immune responses and disease outcome
Amount £200,000 (GBP)
Funding ID MR/L018942/1 
Organisation Medical Research Council (MRC) 
Sector Public
Country United Kingdom
Start 01/2014 
End 01/2017
 
Description CE - Marie-Curie Career Integration Grant (contribution to group member Jorge Bernardino de la Serna
Amount € 100,000 (EUR)
Organisation Marie Sklodowska-Curie Actions 
Sector Charity/Non Profit
Country Global
Start 01/2013 
End 01/2017
 
Description CE - Wellcome Trust Institutional Strategic Support Fund (WTISSF) entitled: Enhancement of technological capacity in biomedical research: Wolfson Imaging Centre Oxford
Amount £101,789 (GBP)
Organisation Wellcome Trust 
Sector Charity/Non Profit
Country United Kingdom
Start 01/2015 
End 01/2017
 
Description CE -John Fell OUP Research Fund entitled: Matching funds for external applications for acquisition of a Zeiss 880 upright confocal microscope with novel Airy-scan super-resolution detector
Amount £70,000 (GBP)
Organisation University of Oxford 
Department John Fell Fund
Sector Academic/University
Country United Kingdom
Start 01/2015 
End 01/2016
 
Description CE -Nanoscopy Oxford: Super-resolution optical STED microscope facility at the WIMM
Amount £62,000 (GBP)
Organisation University of Oxford 
Department E P A Cephalosporin Fund
Sector Charity/Non Profit
Country United Kingdom
Start 01/2014 
End 01/2016
 
Description CE -Wellcome Trust Institutional Strategic Support Fund (WTISSF) 2013-2014 entitled: Containment level 3 super-resolution STED imaging of live virus host-cell interactions
Amount £70,000 (GBP)
Organisation Wellcome Trust 
Sector Charity/Non Profit
Country United Kingdom
Start 01/2013 
End 01/2014
 
Description CE -Wellcome Trust Multi-User Equipment Grant (WT104924AIA) entitled: Advanced super-resolution fluorescence STED microscopy of the cellular interior
Amount £389,000 (GBP)
Funding ID 104924/Z/14/Z 
Organisation Wellcome Trust 
Sector Charity/Non Profit
Country United Kingdom
Start 01/2014 
End 01/2018
 
Description Dynamics of Peroxisomal Protein Transport National Research Unit FOR1905-PerTrans
Amount € 207,800 (EUR)
Organisation German Research Foundation 
Sector Charity/Non Profit
Country Germany
Start 01/2017 
End 12/2019
 
Description Enabling enhanced optical imaging of whole organs by optimized tissue clearing apparatus at University of Oxford light microscopy imaging facilities
Amount £15,000 (GBP)
Organisation University of Oxford 
Department E P A Cephalosporin Fund
Sector Charity/Non Profit
Country United Kingdom
Start 01/2017 
End 01/2018
 
Description Establishment of force measurements in biomedical research
Amount £57,500 (GBP)
Organisation University of Oxford 
Department John Fell Fund
Sector Academic/University
Country United Kingdom
Start 06/2016 
End 05/2017
 
Description ID - MICRON Wellcome Trust Strategic Award entitled: Micron Oxford: super-resolution imaging of cellular dynamics
Amount £4,679,473 (GBP)
Funding ID 107457/Z/15/Z 
Organisation Wellcome Trust 
Sector Charity/Non Profit
Country United Kingdom
Start 01/2016 
End 01/2021
 
Description ID - Wellcome Trust Enhancement of Strategic Award (WT 091911) entitled: Advanced Microscopy for Chromosome and RNA dynamics. Co-applicant
Amount £178,795 (GBP)
Funding ID WT 091911 
Organisation Wellcome Trust 
Sector Charity/Non Profit
Country United Kingdom
Start 01/2014 
End 01/2016
 
Description Newton Fund Researcher Links Workshop Grant 2015
Amount £30,000 (GBP)
Organisation British Council 
Sector Charity/Non Profit
Country United Kingdom
Start 11/2015 
End 05/2016
 
Description Newton Fund Researcher Links Workshop Grant 2016
Amount £30,000 (GBP)
Organisation British Council 
Sector Charity/Non Profit
Country United Kingdom
Start 04/2017 
End 12/2017
 
Description Newton Institutional Links Fund (Turkey/UK): Investigation of Wnt-catenin signalling at the plasma membrane in health and disease
Amount £340,000 (GBP)
Organisation British Council 
Sector Charity/Non Profit
Country United Kingdom
Start 02/2018 
End 01/2020
 
Description Oxford Medical Sciences Internal Bridging Salary Fund Silvia Galiani
Amount £7,332 (GBP)
Organisation University of Oxford 
Department Medical Sciences Division
Sector Academic/University
Country United Kingdom
Start 01/2017 
End 03/2017
 
Title Software for advanced analysis of (super-resolved) FCS data 
Description Software for advanced analysis of (super-resolved) FCS data 
Type Of Material Technology assay or reagent 
Year Produced 2015 
Provided To Others? Yes  
Impact (Waithe, D., Clausen, M.P., Sezgin, E., and Eggeling, C. (2015). FoCuS-point: software for STED fluorescence correlation and time-gated single photon counting. Bioinformatics doi: 10.1093/bioinformatics/btv687). Software for advanced analysis of calcium imaging data (Fritzsche, M., Fernandes, R.F., Colin-York, H., Santos, A.M., Lee, S.F., Lagerholm, B.C., Davis, S.J., and Eggeling, C. (2015). CalQuo: single-cell quantification of intracellular Ca 2+ responses. Scientific Reports DOI: 10.1038/srep16487). Spectral Imaging for advanced observation of polarity-sensitive membrane dyes (Sezgin, E., Waithe, D., Bernardino de la Serna, J., and Eggeling, C. (2015). Spectral Imaging to Measure Heterogeneity in Membrane Lipid Packing. Chemphyschem 16, 1387-1394). 
 
Title Super-resolution STED microscope in category 3 environment at the WIMM for live-cell observations involving fully infectious viruses. 
Description Super-resolution STED microscope in category 3 environment at the WIMM for live-cell observations involving fully infectious viruses. 
Type Of Material Improvements to research infrastructure 
Year Produced 2015 
Provided To Others? Yes  
Impact STED-FLCS and scanning STED-FCS, advanced tools for investigating molecular dynamics and interactions (Vicidomini, G., Ta, H., Honigmann, A., Mueller, V., Clausen, M.P., Waithe, D., Galiani, S., Sezgin, E., Diaspro, A., Hell, S.W., et al. (2015). STED-FLCS: An Advanced Tool to Reveal Spatiotemporal Heterogeneity of Molecular Membrane Dynamics. Nano Lett 15, 5912-5918; Honigmann, A., Mueller, V., Ta, H., Schoenle, A., Sezgin, E., Hell, S.W., and Eggeling, C. (2014). Scanning STED-FCS reveals spatio-temporal heterogeneity of lipid interaction in the plasma membrane of living cells. Nature Communications 5, 5412). 
 
Description Advancing fluorescence microscopy 
Organisation University of Oxford
Department Micron Oxford Advanced Bioimaging Unit
Country United Kingdom 
Sector Academic/University 
PI Contribution Fluorescence microscopy development and servicing
Collaborator Contribution Complementary fluorescence microscopy development and servicing
Impact One publication, three major grants, ongoing technological and infrastructural development, positive evaluation as a Eurobioimaging node
Start Year 2013
 
Description Antigen Presenting Cells 
Organisation University of Oxford
Country United Kingdom 
Sector Academic/University 
PI Contribution Fluorescence microscopy, biophysical techniques, data analysis
Collaborator Contribution APC biology
Impact DPhil studentship
Start Year 2014
 
Description Bcell membrane antibody interaction 
Organisation University of Manchester
Country United Kingdom 
Sector Academic/University 
PI Contribution Fluorescence microscopy
Collaborator Contribution Cells, antibody
Impact Ongoing
Start Year 2015
 
Description BioiScat - molecular membrane dynamics 
Organisation University of Oxford
Department Department of Chemistry
Country United Kingdom 
Sector Academic/University 
PI Contribution Setup and application of iSCAT setup - study of molecular membrane dynamics
Collaborator Contribution Setup of iSCAT setup, data analysis
Impact Two publications EPA grant DPhil student
Start Year 2014
 
Description Epidermal tissue development 
Organisation University of Oxford
Country United Kingdom 
Sector Academic/University 
PI Contribution Fluorescence microscopy, data analysis
Collaborator Contribution skin cell biology
Impact One publication close to submission
Start Year 2013
 
Description Fluorescent lipid analog development 
Organisation University of Birmingham
Department School of Chemistry
Country United Kingdom 
Sector Academic/University 
PI Contribution Fluorescence microscopy
Collaborator Contribution Lipid synthesis and delivery
Impact One publication in preparation
Start Year 2014
 
Description Lymphatic cell receptor organization 
Organisation University of Oxford
Country United Kingdom 
Sector Academic/University 
PI Contribution Fluorescence microscopy, data analysis
Collaborator Contribution Lymphatic Receptor Biology
Impact One publication, one DPhil studentship
Start Year 2013
 
Description Microscopy technology development collaborations 
Organisation Heriot-Watt University
Department School of Engineering & Physical Sciences
Country United Kingdom 
Sector Academic/University 
PI Contribution The Wolfson Imaging Centre at the WIMM (Christian Eggeling, Christoffer Lagerholm) is holding a still-ongoing collaboration agreement with Leica Microsystems. Over the past years, this collaboration has resulted in further optimization of the Leica STED microscope and its efficient use. Two papers have been dedicated to this collaboration (Clausen et al (2013). Pathways to optical STED microscopy. NanoBioImaging 1, 1-12. Clausen et al (2015). A straightforward approach for gated STED-FCS to investigate lipid membrane dynamics. Methods 88, 67-75). In addition to those existing collaborations we have built up important new ones. The most notable is with the Howard-Hughes Institute at Janelia Campus. This collaboration agreement has been set up between Oxford-wide microscopists and microscopists (Eric Betzig), chemists (Luke Lavis) as well as neurobiologists (Rob Singer) at Janelia. It has already resulted in multiple bilateral visits, measurement session and the current write-up of joint publications.
Collaborator Contribution As indicated in the original proposal, collaborations with John Sedat (UCSF), Stefan Hell and Stefan Jakobs (MPI Goettingen, Germany), Alan Greenaway (Edinburgh) and Leica Microsystems are ongoing and have helped advancing microscopy in Oxford significantly. John Sedat has and is still an essential help on all SIM developments; with his know-how and long-time experience he has giving us a significant amount of advice over the past years. Researchers from Micron have several times visited his lab and John Sedat has visited Oxford for a week in 2014. Stefan Hell has been a strong help on all STED developments. Specifically, Christian Eggeling is holding strong links, which resulted in several joint publications since the start of this grant in 2013. Stefan Jakobs is the expert on RESOLFT microscopy. He has contributed to the RESOLFT and SSIM projects by providing photoswitchable fluorescent proteins and giving advice on their optimized expression in cells.
Impact Listed in other section
Start Year 2013
 
Description Microscopy technology development collaborations 
Organisation Leica Microsystems GmbH
Country Germany 
Sector Private 
PI Contribution The Wolfson Imaging Centre at the WIMM (Christian Eggeling, Christoffer Lagerholm) is holding a still-ongoing collaboration agreement with Leica Microsystems. Over the past years, this collaboration has resulted in further optimization of the Leica STED microscope and its efficient use. Two papers have been dedicated to this collaboration (Clausen et al (2013). Pathways to optical STED microscopy. NanoBioImaging 1, 1-12. Clausen et al (2015). A straightforward approach for gated STED-FCS to investigate lipid membrane dynamics. Methods 88, 67-75). In addition to those existing collaborations we have built up important new ones. The most notable is with the Howard-Hughes Institute at Janelia Campus. This collaboration agreement has been set up between Oxford-wide microscopists and microscopists (Eric Betzig), chemists (Luke Lavis) as well as neurobiologists (Rob Singer) at Janelia. It has already resulted in multiple bilateral visits, measurement session and the current write-up of joint publications.
Collaborator Contribution As indicated in the original proposal, collaborations with John Sedat (UCSF), Stefan Hell and Stefan Jakobs (MPI Goettingen, Germany), Alan Greenaway (Edinburgh) and Leica Microsystems are ongoing and have helped advancing microscopy in Oxford significantly. John Sedat has and is still an essential help on all SIM developments; with his know-how and long-time experience he has giving us a significant amount of advice over the past years. Researchers from Micron have several times visited his lab and John Sedat has visited Oxford for a week in 2014. Stefan Hell has been a strong help on all STED developments. Specifically, Christian Eggeling is holding strong links, which resulted in several joint publications since the start of this grant in 2013. Stefan Jakobs is the expert on RESOLFT microscopy. He has contributed to the RESOLFT and SSIM projects by providing photoswitchable fluorescent proteins and giving advice on their optimized expression in cells.
Impact Listed in other section
Start Year 2013
 
Description Microscopy technology development collaborations 
Organisation University of California, San Francisco
Country United States 
Sector Academic/University 
PI Contribution The Wolfson Imaging Centre at the WIMM (Christian Eggeling, Christoffer Lagerholm) is holding a still-ongoing collaboration agreement with Leica Microsystems. Over the past years, this collaboration has resulted in further optimization of the Leica STED microscope and its efficient use. Two papers have been dedicated to this collaboration (Clausen et al (2013). Pathways to optical STED microscopy. NanoBioImaging 1, 1-12. Clausen et al (2015). A straightforward approach for gated STED-FCS to investigate lipid membrane dynamics. Methods 88, 67-75). In addition to those existing collaborations we have built up important new ones. The most notable is with the Howard-Hughes Institute at Janelia Campus. This collaboration agreement has been set up between Oxford-wide microscopists and microscopists (Eric Betzig), chemists (Luke Lavis) as well as neurobiologists (Rob Singer) at Janelia. It has already resulted in multiple bilateral visits, measurement session and the current write-up of joint publications.
Collaborator Contribution As indicated in the original proposal, collaborations with John Sedat (UCSF), Stefan Hell and Stefan Jakobs (MPI Goettingen, Germany), Alan Greenaway (Edinburgh) and Leica Microsystems are ongoing and have helped advancing microscopy in Oxford significantly. John Sedat has and is still an essential help on all SIM developments; with his know-how and long-time experience he has giving us a significant amount of advice over the past years. Researchers from Micron have several times visited his lab and John Sedat has visited Oxford for a week in 2014. Stefan Hell has been a strong help on all STED developments. Specifically, Christian Eggeling is holding strong links, which resulted in several joint publications since the start of this grant in 2013. Stefan Jakobs is the expert on RESOLFT microscopy. He has contributed to the RESOLFT and SSIM projects by providing photoswitchable fluorescent proteins and giving advice on their optimized expression in cells.
Impact Listed in other section
Start Year 2013
 
Description Microscopy technology development collaborations 
Organisation University of Göttingen
Department Medical School
Country Germany 
Sector Academic/University 
PI Contribution The Wolfson Imaging Centre at the WIMM (Christian Eggeling, Christoffer Lagerholm) is holding a still-ongoing collaboration agreement with Leica Microsystems. Over the past years, this collaboration has resulted in further optimization of the Leica STED microscope and its efficient use. Two papers have been dedicated to this collaboration (Clausen et al (2013). Pathways to optical STED microscopy. NanoBioImaging 1, 1-12. Clausen et al (2015). A straightforward approach for gated STED-FCS to investigate lipid membrane dynamics. Methods 88, 67-75). In addition to those existing collaborations we have built up important new ones. The most notable is with the Howard-Hughes Institute at Janelia Campus. This collaboration agreement has been set up between Oxford-wide microscopists and microscopists (Eric Betzig), chemists (Luke Lavis) as well as neurobiologists (Rob Singer) at Janelia. It has already resulted in multiple bilateral visits, measurement session and the current write-up of joint publications.
Collaborator Contribution As indicated in the original proposal, collaborations with John Sedat (UCSF), Stefan Hell and Stefan Jakobs (MPI Goettingen, Germany), Alan Greenaway (Edinburgh) and Leica Microsystems are ongoing and have helped advancing microscopy in Oxford significantly. John Sedat has and is still an essential help on all SIM developments; with his know-how and long-time experience he has giving us a significant amount of advice over the past years. Researchers from Micron have several times visited his lab and John Sedat has visited Oxford for a week in 2014. Stefan Hell has been a strong help on all STED developments. Specifically, Christian Eggeling is holding strong links, which resulted in several joint publications since the start of this grant in 2013. Stefan Jakobs is the expert on RESOLFT microscopy. He has contributed to the RESOLFT and SSIM projects by providing photoswitchable fluorescent proteins and giving advice on their optimized expression in cells.
Impact Listed in other section
Start Year 2013
 
Description Photoswitchable label development 
Organisation University of Oxford
Department Department of Chemistry
Country United Kingdom 
Sector Academic/University 
PI Contribution Fluorescence microscopy
Collaborator Contribution Organic chemistry, organic dye synthesis
Impact One publication two grants
Start Year 2014
 
Description T-cell activation 
Organisation University of Oxford
Country United Kingdom 
Sector Academic/University 
PI Contribution Fluorescence microscopy of T-cell during activation, receptor and actin dynamics - our contribution microscopy and analysis
Collaborator Contribution T-cell biology
Impact 3 publications, one Wellcome Trust Grant
Start Year 2013
 
Title CalQuo software for advanced analysis of calcium imaging data 
Description Software license on CalQuo software for advanced analysis of calcium imaging data 2015 (Fritzsche, M., Fernandes, R.F., Colin-York, H., Santos, A.M., Lee, S.F., Lagerholm, B.C., Davis, S.J., and Eggeling, C. (2015). CalQuo: single-cell quantification of intracellular Ca 2+ responses. Scientific Reports DOI: 10.1038/srep16487). 
IP Reference  
Protection Copyrighted (e.g. software)
Year Protection Granted 2015
Licensed Commercial In Confidence
Impact Software license on CalQuo software for advanced analysis of calcium imaging data 2015 (Fritzsche, M., Fernandes, R.F., Colin-York, H., Santos, A.M., Lee, S.F., Lagerholm, B.C., Davis, S.J., and Eggeling, C. (2015). CalQuo: single-cell quantification of intracellular Ca 2+ responses. Scientific Reports DOI: 10.1038/srep16487).
 
Description Articles Written for the Leica Science Lab 
Form Of Engagement Activity A magazine, newsletter or online publication
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Professional Practitioners
Results and Impact Added information to Leica website about nanoscopy. have received queries about further information

no notable impact
Year(s) Of Engagement Activity 2012,2013,2014,2015,2016
URL http://www.leica-microsystems.com/science-lab/
 
Description Conference Organizations 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Postgraduate students
Results and Impact Conference/workshop Organizer: 4th International Symposium on Physics, Chemistry & Biology with Single Molecules, German Volkswagen foundation, Kloster Banz, Germany (2004); The Physics of Imaging, German Physical Society, Bad Honnef, Germany (2005); Trends in Biological Optical Microscopy, Boehringer Ingelheim foundation, Titisee, Germany (2007); SPIE Photonics West BIOS, Single Molecule Spectroscopy and Superresolution Imaging, USA (2009-); SPIE Nanoimaging and Nanospectroscopy, San Diego (2013-); EOS Frontiers in Optical Imaging, Murten, Switzerland (2013); Leica Super-Resolution User Club Meeting, Oxford, UK (2014); Coherent Bioimaging Workshop, Oxford, UK (2014); Conference on Lasers and Electro-Optics Europe (CLEO/Europe), Munich, Germany (2015); International Conference On Nanoscopy EUROPE (ICON2016), Basel, 2016; EBSA European Biophysical Congress, Madrid, 2019
Year(s) Of Engagement Activity 2012,2013,2014,2015,2016
 
Description Editorial Board Member 
Form Of Engagement Activity A formal working group, expert panel or dialogue
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Media (as a channel to the public)
Results and Impact Editorial Board Member in journals: NanoBioimaging, Frontiers in Physiology, Journal of Physics D, Scientific Reports
Year(s) Of Engagement Activity 2012,2013,2014,2015,2016
 
Description High School, undergraduate and graduate placement students in lab 
Form Of Engagement Activity A formal working group, expert panel or dialogue
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Schools
Results and Impact Visits of high school, undergraduate and graduate students (7 so far) in my lab for up to 6 months, teaching them in our research
Year(s) Of Engagement Activity 2013,2014,2015,2016
 
Description High school children. 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? Yes
Geographic Reach Local
Primary Audience Schools
Results and Impact I gave a presentation to High school children as part of a regular public engagement excercise to help them decide which science they should choose to study at University.

High school children across Scotland were aided in their effort to make appropriate choices for University courses and were enriched in their general understanding of Biology.
Year(s) Of Engagement Activity 2007
 
Description High-School visits 
Form Of Engagement Activity Participation in an open day or visit at my research institution
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Schools
Results and Impact Visits of high school students to our institute/laboratory - insights into research activities
Year(s) Of Engagement Activity 2017
 
Description Lectures 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Type Of Presentation Keynote/Invited Speaker
Geographic Reach International
Primary Audience Postgraduate students
Results and Impact Insights into general and super-resolution fluorescence microscopy and membrane bioactivity

Increased enquiry in using our imaging facilities, teach students/researchers
Year(s) Of Engagement Activity 2012,2013,2014,2015,2016
 
Description MIcron microscopy course 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Postgraduate students
Results and Impact Bi-annual microscopy course at Micron/WIMM (60-70 researchers from Oxford joining each time, lectures as well as hands-on sessions)
Year(s) Of Engagement Activity 2007,2008,2009,2010,2011,2012,2013,2014,2015,2016
 
Description Microscopy Teaching 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Public/other audiences
Results and Impact Teaching on microscopy on international/national fares, workshops, University courses, doctoral and undergraduate training centres
Year(s) Of Engagement Activity 2012,2013,2014,2015,2016
 
Description Microscopy Teaching in High Schools 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Schools
Results and Impact Teach basics of microscopy to high school kids including hands-on
Year(s) Of Engagement Activity 2015,2016
 
Description Microscopy Workshop Izmir, Turkey 10.2017 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Undergraduate students
Results and Impact Teaching of basics of optical microscopy to public/scientists in Turkey - funded by the British Council
Year(s) Of Engagement Activity 2017
 
Description Microscopy Workshop Izmir, Turkey 4.2016 and 12.2016 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Postgraduate students
Results and Impact Organization of microscopy course in Izmir, Turkey including hands-on sessions
Year(s) Of Engagement Activity 2016
 
Description Microscopy Workshop Lubljana, 9.2017 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Undergraduate students
Results and Impact Teaching of basics of optical microscopy to public/students
Year(s) Of Engagement Activity 2017
 
Description Microscopy in school 
Form Of Engagement Activity A formal working group, expert panel or dialogue
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Schools
Results and Impact Teaching of microscopy in regional schools
Year(s) Of Engagement Activity 2015,2016
 
Description ONBI 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Postgraduate students
Results and Impact New CDT ONBI Bioimaging, started 2014, includes teaching on microscopy
Year(s) Of Engagement Activity 2014,2015,2016
 
Description Organizing of the 6th International Congress of The Molecular Biology Association of Turkey in Izmir, September 2018 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Postgraduate students
Results and Impact Scientific conference for exchanging results and start new collaborations in the field of Molecular Biology.
Year(s) Of Engagement Activity 2018
 
Description Oxford Bioimaging Festival 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Undergraduate students
Results and Impact Co-organizer Oxford Bioimaging festival

Large increase in enquiries to our group - many people wanting to know if they could obtain copies of the images we had for display in public areas.
Year(s) Of Engagement Activity 2012,2013,2014,2015,2016
URL http://www.imaging.ox.ac.uk/activities/annual-festival/imagefest12
 
Description Oxford curiosity carnival 
Form Of Engagement Activity Participation in an open day or visit at my research institution
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact Presenting general activities of the institute/University to the public at an open event
Year(s) Of Engagement Activity 2017
 
Description Publication of glossy brochure for dissemination 
Form Of Engagement Activity A magazine, newsletter or online publication
Part Of Official Scheme? No
Geographic Reach National
Primary Audience Public/other audiences
Results and Impact Development and publication of a glossy brochure illustrating in lay terms the important work carried out in the unit and dissemination to the general public.
Year(s) Of Engagement Activity 2016
 
Description Science evening at Eynsham Primary School 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Schools
Results and Impact A hands-on interactive science evening at a local primary school
Year(s) Of Engagement Activity 2016
 
Description Webinar on STED Far-field Nanoscopy 
Form Of Engagement Activity A talk or presentation
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Media (as a channel to the public)
Results and Impact At the request of LEICA, I put together a webinar (online presentation) to discuss my current work. This was advertised to their employees, and made publicly available

Closer relationship with LEICA. They have since held a Symposium here at the WIMM to discuss Nanoscopy
Year(s) Of Engagement Activity 2013,2014,2015
URL http://view6.workcast.net/?pak=8993948753416174