mmc2019 Conference Sessions

The conference at mmc2019 will comprise over 30 symposia, with excellent speakers, talks and vibrant supporting poster sessions.

The conference sessions are listed below, for more information on our Invited Speakers please click on their name.

Scottish Microscopy Group (SMG) & Microscopy Society of Ireland (MSI) Sessions

SMG & MSI: Exploiting Physical and Beam Probes to Resolve Structure

Session Chair: Alison Dun (Heriot-Watt University, UK)

All microscopy techniques come with their caveats; bleaching due to powerful lasers, cytotoxic effects, sample deformation due to sample prep or acquisition method. However many of these caveats can be transformed into an advantage to better resolve structure in both biological and non-biological materials. Some great examples of this include the use of: mechanical probes to examine the structure of small and soft natural polyhedral structures called Clathrin in AFM, highly powerful lasers to bypass resolution and reveal structure in super-resolution microscopies such as STED and RESOLFT as well as electron-beam probe effects in Electron Microscopy techniques. In this session we will hear more about these techniques and learn how accessible they are for you in your research.

Invited Speakers

SMG & MSI: Trials and Tribulations of Electron and Light Beam Induced Radiation Effects

Session Chair: Ursel Bangert (University of Limerick, Ireland)

This session will address ways to overcome probe and dose induced issues, and moreover, to advantageously exploit beam and physical probes of varied properties (e.g., regarding dose, energy, strength) for characterisation of samples across the entire materials spectrum, using assessment by all types of (e.g., physical probe, light, electron) microscopy. Contributions are furthermore invited to demonstrate direct effects and result outcomes from visualising, imaging and spectroscopically assessing materials, ranging from inorganic to organic and bio materials.  

Invited Speakers
  • Ilke Arslan (Argonne National Laboratory, USA)
  • Patricia Abellan (SuperSTEM and University of Leeds, UK)
    • Imaging and spectroscopy of radiation-induced physical and chemical processes in the electron microscope: from the study of molecular excited states to the in-situ degradation/growth of nanostructures

      Patricia Abellan Patricia Abellan is a staff research scientist at SuperSTEM Laboratory (Daresbury, UK) and a SuperSTEM research fellow at the University of Leeds (since 2015). She received her BSc in Physics from the Aalborg University (Denmark) and her Ph.D. in Materials Sciences from the Autonomous University of Barcelona and Institute of Materials Science of Barcelona (ICMAB-CSIC), Spain, in 2011. She has held postdoctoral positions at the University of California – Davis and Pacific Northwest National Laboratory, USA. Her research focuses on the use of the effect of the electron beam in solid and liquid media to investigate nanomaterials (excited electronic states of molecules, molecule-metal interactions or the growth and degradation dynamics of nanostructures by ionizing species). In 2013 she received the Best Ph.D. Thesis Award from the Microscopy Society of Spain and her work has led to research highlights from PNNL's Physical Science Division, DOE’s Joint Center for Energy Storage Research (JCESR) and Nature News. Most recently, she has co-organized the radiation beam-damage pre-meeting congress at M&M2017 and has served as managing guest editor of the special issue in liquid-phase EM in Micron (2019). She has published over 40 journal articles and book chapters, is the co-inventor in a patent application and has given 16 invited presentations at international conferences and academic institutions.

Frontiers in BioImaging Sessions

Frontiers in BioImaging: Label-free Quantitative Optical Microscopy

Session Chair: Paola Borri (Cardiff University, UK)

The session will cover methods to image biological cells and tissues label-free, including quantitative phase imaging, quantitative differential interference contrast microscopy (qDIC), vibrational microscopy (spontaneous Raman, coherent Raman), Brillouin micro-spectroscopy, second and third harmonic generation microscopy, autofluorescence. Specific emphasis will be on quantitative techniques and image analysis methodologies.

Invited Speakers
  • Daniele Fioretto (Università degli Studi di Perugia, Italy)
    • Talk title: Brillouin-Raman micro-spectroscopy for bioimaging of cells and tissues

      Daniele Fiorette Full Professor of Physics at the University of Perugia since 2010. PI of the Research Group on Soft Matter and Glasses ( He has been working on micro- and nano-spectroscopic-imaging of biological systems, collective and single particle dynamics of pure water and of hydration water in systems of biological interest, collective dynamics of amorphous solids, structural arrest in glass transition, gelation and polymerization processes. He set up the laboratories of Brillouin Spectroscopy, simultaneous micro-Brillouin and micro-Raman spectroscopy, Photon-Correlation Spectroscopy and Dielectric Spectroscopy, Extended frequency range Depolarized Light Scattering (EDLS), and participated to the development of a high-resolution ultraviolet Brillouin scattering setup at the Elettra Sincrotrone Trieste.

  • Gabriel Popescu, (University of Illinois Urbana-Champaign, USA)
    • Talk title: Dynamics of cellular systems studied by Quantitative Phase Imaging (QPI)

      Gabriel Popescu Light scattering limits the quality of optical imaging of unlabeled biospecimens: too little scattering and the sample is transparent, exhibiting low contrast, and too much scattering washes the structure information altogether. Recent advances in QPI, an approach by which the pathlength shifts induced by a specimen are mapped at each point in the field of view, allow us to connect the two regimes. We developed spatial light interference microscopy (SLIM) as a high-sensitivity, high-resolution QPI method, which open new applications for studying structure and dynamics. SLIM provides interesting data on cell growth and intracellular transport, specifically, it distinguishes between random and deterministic cargo motion. We measured subtle vesicle transport changes following optogenetic stimulation of live cells. Based on principles of holography, we developed a new optical technique for measuring cell traction. We performed simultaneous measurements of cell growth and cell-generated forces and showed their evolution during cell differentiation. However, SLIM works best for thin specimens, such as single cell layers and tissue slices. To expand this type of imaging to thick, multiply scattering media, we developed gradient light interference microcopy (GLIM). GLIM is capable of suppressing the incoherent background due to multiple scattering. We demonstrate the use of GLIM to image various samples bovine embryos and live brain slices. Intrinsic dynamic markers promise to provide information about embryo viability, prior to implantation.

Frontiers in BioImaging: Biological Applications of Fluorescence Microscopy Beyond the Diffraction Limit

Session Chair: Dylan Owen (King’s College London, UK)

The rise of super-resolution has involved the development of probes, labelling strategy, hardware acquisition software and analysis algorithms. With super-resolution system now commercially and widely available, new insight is now being generated on a range of biological frontiers. These include neuroscience, immunology, microbiology and others. This session will showcase this new understanding and is open to anyone developing, or just using, super-resolution to make new biological discoveries.             

Invited Speakers
  • Daniel Davis (University of Manchester, UK)
    • Talk Title: Using super-resolution microscopy to watch immune cells kill

      Daniel Davis Daniel M. Davis is Professor of Immunology at the University of Manchester and holds a Wellcome Trust Investigator Award. Previously, Davis was Head of Immunology at Imperial College London, South Kensington. His research, using super-resolution microscopy to study immune cell biology, was listed in Discover magazine as one of the top 100 breakthroughs of the year. His first book, The Compatibility Gene, was described by Bill Bryson in the Guardian’s Books of the Year as ‘elegantly written and unexpectedly gripping’. His second book, The Beautiful Cure, has been described by Stephen Fry as 'One of those books that makes you look at everything human in a new, challenging and thrilling way'. Davis is a Fellow of the Academy of Medical Science and the author of over 120 academic papers, collectively cited over 10,000 times, including articles in Nature, Science and Scientific American.

  • Ulrike Endesfelder (Max Planck Institute for Terrestrial Microbiology, Germany)
    • Talk Title: Exploring cell-biology on a molecular level: Live-cell and quantitative localization microscopy

      Ulrike Endesfelder Ulrike Endesfelder received her diploma in physics from Bonn University in 2008. She then became interested in the biophysics of single molecules and pursued a summer research stay at Waseda University, Tokyo, in 2008. She received her PhD in Biophysics at the University of Bielefeld in February 2012 and performed her postdoctoral trainings at Würzburg and Frankfurt University from 2012-2014. In October 2014, Ulrike Endesfelder moved to the Max Planck Institute for Terrestrial Microbiology in Marburg, Germany, where she is leading a research group focused on combining methods from physics and biology to understand the molecular organisation and behaviour of microbial cell biology. She also teaches biophysics undergraduate courses at the University of Marburg.

Frontiers in BioImaging: Developments in Super-resolution Microscopy

Session Chair: Seamus Holden (Newcastle University, UK)

All the latest developments in light microscopes that beat the diffraction limit (STORM/ PALM, SIM, STED etc.). Including the latest improvements in high resolution, high speed, multicolour , multimodal or correlative super-resolution microscopy. As well as developments in probes and algorithms. Plus anything else that involves making microscopes less blurry.

Invited Speakers
  • Suliana Manley (EPFL, Switzerland)
    • Talk Title: Spanning length and time scales with super-resolution microscopies

      Suliana Manley Suliana Manley graduated with honors from Rice University in 1997, with degrees in physics and mathematics. She joined the group of David Weitz for her doctoral work, completed at Harvard University, then moved down the street to MIT to do postdoctoral work in the group of Alice Gast. Her expedition into the exciting and complex world of biology and super-resolution microscopy began when she moved to the NIH to work with Jennifer-Lippincott Schwartz, as a National Research Council Fellow. In 2009, she started her own group as a professor of physics at EPFL, where she was promoted with tenure in 2016. The scientific focus of the group is on developing tools such as high-throughput and “smart” super-resolution microscopies, and using them to understand the biophysics of cellular organization and dynamics.

  • Sebastian Van De Linde (University of Strathclyde, UK)
    • Talk Title: Three-dimensional super-resolution imaging of membrane glycoproteins

      Sebastian Van De Linde Sebastian is a biophysicist with a main research interest in single molecule spectroscopy. He finished his PhD in Physics at Bielefeld University, Germany, in 2011 on molecular photoswitches and their use in single-molecule based super-resolution imaging. Then he moved to the University of Wuerzburg, Germany, where he applied super resolution microscopy to study different biological systems, such as the nuclear pore complex in Xenopus laevis and presynaptic proteins in Drosophila. In 2016, he started as a Lecturer at the Department of Physics, University of Strathclyde, Scotland. He aims to develop novel photoswitches, optical imaging systems, software for image processing and data analysis, and apply these tools to study cellular life.

Frontiers in BioImaging: Light Sheet Microscopy: Imaging Complex Biological Samples in Time and Space

Session Chair: Steve Thomas (University of Birmingham, UK)

The great potential of light sheet imaging is the ability to image dynamic biological events in 3D samples. This session will focus on the application of light sheet and other advanced microscopy techniques to imaging dynamic processes within complex 3D samples. It will cover the challenges of imaging fast events (such as the beating heart), events which occur over long periods of time (e.g. angiogenesis, embryonic development) or imaging biomolecules in thick tissue sections. It will also cover the multiplexing of light sheet with other modalities, such as super-resolution or multiphoton microscopy to help overcome these challenges.      

SPM Sessions

SPM: Advancing Materials Science via Scanning Probes

Session Chair: Oleg Kolosov (Lancaster University, UK)

Development of modern materials and devices increasingly relies on their nanoscale structure and local properties. Scanning Probe Microscopy (SPM) plays a critical role in establishing connections between the structure, physical and chemical traits on materials at the nanoscale and the final material performance. SPM is vital to both fundamental and applied research, creating paradigms for novel materials and guiding development of engineering devices. This symposium will report on the latest scanning probe developments advancing wide areas of materials science and engineering, and link the champions in the SPM field and leading material scientists establishing new synergetic collaborations.

Invited Speakers
  • Cyrus Hirjibehedin (MIT Lincoln Laboratory, USA)
    • Talk Title: Accessing and controlling the interaction of individual magnetic atoms and molecules with surfaces

      Cyrus Hirjibehedin Cyrus F. Hirjibehedin is a member of Technical Staff in the Quantum Information and Integrated Nanosystems Group at MIT Lincoln Laboratory. He studies superconducting quantum systems and their applications in quantum information processing. Prior to joining MIT Lincoln Laboratory, Dr. Hirjibehedin was a Professor of Physics, Chemistry, and Nanotechnology at University College London (UCL). His research used scanning probe microscopy to understand the electronic and magnetic properties of nanometer-scale quantum structures and explore their potential applications in future paradigms of information processing, data storage, and sensing. Before moving to UCL, Dr. Hirjibehedin was a postdoctoral Research Staff Member at IBM’s Almaden Research Center in the Low-Temperature Scanning Tunneling Microscopy Group. Working with Dr. Don Eigler and Dr. Andreas Heinrich, he studied the onset of cooperative magnetic behavior in atomically-precise low-dimensional structures. For his Ph.D. research, Dr. Hirjibehedin worked with Professor Aron Pinczuk at both Columbia University and Bell Labs, Lucent Technologies to explore novel interaction effects in low dimensional electron systems formed in semiconductor quantum structures. Results from Dr. Hirjibehedin’s work have been published in over 40 papers in leading academic journals. He has presented this work in more than 140 invited talks at international conferences and seminars, and has received a number of awards for performing high-impact research, including the Medal for Scanning Probe Microscopy from the Royal Microscopical Society and an Outstanding Innovation Award from IBM. Dr. Hirjibehedin received a B.S. in both Physics and Computer Science from Stanford University and a Ph.D. in Physics from Columbia University.

  • Franco Dinelli (Istituto Nazionale di Ottica, CNR-INO, Italy)
    • Talk Title: Scanning probe microscopy: probing materials beyond the surface

      Franco Dineli I was born in Italy and I obtained my first degree in Physics at the University of Pisa. Then I accomplished a D. Phil. in Materials Science at the University of Oxford. After a few years of posdoc grants in US and UK, I moved back to Italy where I worked for a few years at Consiglio Nazionale delle Ricerche (CNR) in Bologna. Finally I returned with a permanent position as researcher at CNR in Pisa, where I had started my scientific carrier. Initially I have spent most of my efforts in using and developing techniques related to Scanning Probe Microscopy (SPM). In particular my D. Phil. thesis has regarded the development of Ultrasonic Force Microscopy for the elastic characterization of stiff materials on the nanoscale. I have also established several collaborations where I could come across other experimental techniques (such as TEM, x-ray diffraction, XPS and tof-SIMS), which could provide complementary information to SPM data. My research has been devoted to the characterization of materials on the nanoscale. I have mainly analyzed the properties of thin oligomeric and polimeric films for applications in fields such as organic electronics and biology. More recently I have been involved in research concerning new emerging materials, from nanogels to 2D materials. One of my main interests nowadays regards the use of SPM to ‘see’ below the surface.

  • Olga Kazakova (National Physical Laboratory, UK)
    • Talk Title: Local functional studies of 2D materials and heterostructures

      Olga Kazakova Olga Kazakova received the Ph.D. degree in Solid State Physics from Institute of Crystallography, Russian Academy of Science in 1996. In 1999 – 2002, she was a first postdoctoral researcher and then an Assistant Professor at Chalmers University of Technology, Gothenburg, Sweden. Since 2002, she has been working at the National Physical Laboratory, where she became a Principle Research Scientist in 2010. Her research interests include functional (electronic, optical, structural) nanoscale studies of 2D materials; development of novel Scanning Microscopy techniques; novel sensors for Life Science and metrological applications. She is an author of ca 160 peer-refereed publications and had above 130 presentations at scientific conferences, e.g. ca 60 invited talks and seminars. She was a recipient of the numerous national and international awards, including Intel European Research and Innovation Award (2008), NPL Rayleigh Award and Serco Global Pulse Award (2011). She is a Fellow of Institute of Physics.

SPM of Soft and Biological Matter

Session Chair: Jamie Hobbs (University of Sheffield, UK)

Scanning probe microscopy (SPM) techniques have unique capabilities for exploring the properties of soft matter and biological systems. These systems frequently have heterogeneous structural, mechanical and chemical properties that vary over length scales of just a few nanometres, can combine ordered and disordered regions, and often change dramatically with time, all impacting on their ultimate properties and function. This session will showcase the capabilities of SPM to help understand such complex systems, including applications to polymer and biological systems of imaging, measurement of mechanical and chemical properties, force spectroscopy and high speed scanning.

Invited Speakers
  • Alice Pyne (University College London, UK)
    • Talk Title: Untangling DNA, one molecule at a time

      Alice Pyne Alice Pyne is an MRC/UKRI Innovation Fellow at University College London. Alice has a decade of experience in scanning probe microscopy, spanning high-speed and high-resolution imaging, probe development and cantilever sensing. Her research interests use these technologies to determine biomolecular mechanisms of action, with a long-term view to improved development of therapeutics. Alice’s current research aims to understand how enzymes, essential for life in both humans and bacteria, interact with DNA in its complex native topologies. She exploits her high-resolution Atomic Force Microscopy techniques to visualise the interplay between topologically complex DNA and topoisomerase enzymes in real time, at sub-molecular resolution. These studies aim to reveal the mechanism-of-action of topoisomerases, which are major targets for antibiotic and anti-cancer therapeutics.

  • Felix Rico (Aix-Marseille University, France)
    • Talk Title: Molecular to cellular mechanics using high-speed atomic force microscopy

      Felix Rico Felix Rico is Associate Professor at the department of Physics of Aix-Marseille University since 2013. His research is developed at the force microscopy group of the LAI, U1067, a joined Inserm, CNRS and Aix-Marseille University laboratory. He studied Physics and received his PhD in Biophysics in Barcelona, Spain. Before joining the faculty in Marseille, he was postdoc at the University of Miami Miller School of Medicine (FL) and at Institut Curie (Paris). He has been working with atomic force microscopy (AFM) since 2001, trying to understand the mechanics and adhesion properties of biological systems. He has developed various AFM based approaches, including theoretical and instrumentation developments, to investigate the mechanical response of single biomolecules, membranes and living cells. Recently, he adapted high speed AFM (HS-AFM) to work as a force spectroscopy tool, probing the mechanics of single biomolecules and living cells at the shortest timescales.

SPM - A tool for Pharmaceutical and Biomedical Research

Session Chair: Stephanie Allen (University of Nottingham, UK)

The applications of scanning probe microscopy in Pharmaceutical and Biomedical research, in both industry and academia, are diverse. From studies into the fundamental basis of disease and the identification of new biological targets, to the characterization of physiochemical properties of drug-substances, the optimization of novel drug-delivery formulations and development new materials for cellular therapies and regenerative medicine. This session aims to provide an opportunity for researchers to present their latest research in this area. Abstracts are encouraged in all of the above areas.

SPM: Nanomechanics for Biology and Biomedicine

Session Chair: Nuria Gavara (Queen Mary University of London, UK)

Nanomechanics using AFM offers the possibility to characterize biological samples at the nanonewton and picoforce scale in physiological conditions, often in conjunction with advanced light-based imaging. Given the multiparametric outputs and mapping possibilities of the latest instruments, larger areas can be explored and more mechanical estimates found, providing a richer mechanical picture that can be extended up to tissue and organ levels. Similarly, faster and more precise systems also have expanded the possibilities of force spectroscopy approaches to better characterize the mechanical behaviour of individual proteins or biomolecules.  Finally, while nanomechanics expands its range towards smaller and larger scales, more complex mechanics models are being proposed to better characterize these increasingly-specialized experiments.

Invited Speakers
  • Sergi Garcia-Manyes (King’s College London, UK)
    • Talk Title: The mechanical stability of proteins regulates their translocation rate into the cell nucleus

      Sergi Garcia-Manyes Dr. Sergi Garcia-Manyes is Professor of Biophysics at King’s College London, holding a joint appointment between the Randall Centre for Cell and Molecular Biophysics and the Department of Physics, where he is the Head of the Biological Physics and Soft Matter (BPSM) research group. He has also established a satellite laboratory at the Francis Crick Institute (London). Sergi obtained his PhD in Physical Chemistry from the University of Barcelona, and conducted his postdoctoral training in the field of single molecule mechanics in the Biology Department of Columbia University in the City of New York. Sergi’s lab is interested in mechanobiology across different length-scales, spanning from single molecules to individual cells, with a particular accent on the molecular mechanisms underpinning mechanical folding of single proteins and protein mechanochemistry at the single bond level. Sergi held an EPSRC Early Career Fellowship, and has been recently awarded the Leverhulme Research Leadership Award and a Wellcome Trust Investigator Award.

  • Jamie Hobbs (University of Sheffield, UK)
    • Talk Title: Using atomic force microscopy to probe the mechanics of the bone metastatic niche in breast cancer

      Jamie Hobbs Jamie obtained a degree in Physics from the University of Bristol in 1991 and a PhD in Polymer Physics from Bristol in 1996. In his early career his research was focused on understanding how synthetic polymer crystallize, using atomic force microscopy (AFM) as a primary tool. In 2001 he co-founded a spin-out company, Infinitesima Ltd, which markets high speed AFM into the semiconductor inspection market. After moving to the University of Sheffield in 2004 he started to shift towards biological physics, working on the architecture of the bacterial cell wall. His group’s current research includes developing AFM and using it to understand diverse problems in biology, including bacterial life and death, bone metastasis in breast cancer, and plant cell morphogenesis.

Life/Physical Sessions

Bio Applications: Imaging in Disease

Session Chair: Claire Wells (King’s College London, UK)

Imaging cells in fixed samples and living tissue is transforming our view of disease progress from neurological disorders to cancer. This session aims to highlight the latest developments at high resolution and in vivo imaging with an emphasis on highlighting advances in the field. Contributions to this symposium are solicited from any area of research where imaging techniques are being applied to the study of human disease.

Invited Speakers
  • Milka Sarris (University of Cambridge, UK)
  • David Entenberg (Albert Einstein College of Medicine, USA)
    • Talk Title: Investigating Tumor Cell Dissemination and Metastasis with Single Cell Resolution Intravital Imaging

      David Entenberg David Entenberg is an Associate Faculty Member of the Department of Anatomy and Structural Biology at Einstein College of Medicine. He serves as both the Director of Technological Development, and Director of Integrated Imaging within Einstein’s Gruss Lipper Biophotonics Center and Integrated Imaging Program. The mandates of the Center and Program are to study and develop novel microscopy techniques that create a bridge between basic and clinical sciences, and answer fundamental biological questions that lead to cures for biomedical problems. With a background in laser based experimental quantum physics, his expertise lies in the design and development of novel instrumentation and imaging technologies for biological research. His work has included: the design and development of novel multiphoton microscopes for imaging in live mice; novel implantable imaging windows for imaging of metastatic cancer in the mammary glands and the lungs of live mice; and several image analysis software packages to facilitate the analysis of cell motility, colocalization image data, and automated digital pathology based analyses for biomarkers of cancer metastasis. He has authored numerous publications and book chapters on multiphoton microscopy and live animal imaging and is a lecturer at Einstein’s Quantitative Imaging of Cells course. 

Imaging the Immune System

Session Chair: Theresa Ward (London School of Hygiene & Tropical Medicine, UK)

The immune system is a highly sophisticated and dynamic group of cells and organs that constantly have to adapt to maintain healthy tissues in the body. While, traditionally, flow cytometry has been the stalwart fluorescence workhorse of the immunology community, fluorescence microscopy techniques now provide fantastic platforms to enable researchers to delve into the behaviour of live immune cells, study population traffic, homing and signalling both in vitro and in vivo. This session will showcase the latest developments using imaging at high resolution and in vivo. Contributions to this symposium are solicited from any area of research where imaging techniques are being applied to the study of immunology.

Using Cryo-electron Microscopy to Investigate Macromolecular Structure

Session Chair: Rebecca Thompson (University of Leeds, UK)

The recent advances in cryo-electron microscope hardware and software have revolutionised the field. This session focuses on how both single particle and tomography data collection approaches, combined with method developments, are enabling cryo-EM to tackle increasingly complex biological questions. 

Correlative Microscopy

Session Chair: Leandro Lemgruber (University of Glasgow, UK)

Correlative microscopy is a combination of different microscopy techniques to observe the same object/event, enabling to extract more information and details than from a single method on its own. This has allowed the understanding of the dynamic behavior of cellular components and tissues, and their connections in different scales. This session will reflect the latest developments and applications of Correlative Microscopy in different research studies and areas.

Invited Speakers
  • Wanda Kukulski (MRC Laboratory of Molecular Biology, UK)
    • Talk Title: Native membrane architectures studied by correlative microscopy and electron cryo tomography

      Wanda Kukulski Wanda Kukulski studied biology at the University of Basel, where she also did her PhD at the Biozentrum. During this time, she solved the structure of a water channel protein by electron crystallography. For her postdoc, she worked at the EMBL in Heidelberg where she developed a correlative microscopy workflow and applied it to visualise how the plasma membrane reshapes during endocytosis. Currently Wanda leads a group in the Cell Biology Division of the MRC LMB. Her group studies how membrane architecture is linked to cellular functions, with a current focus on the organisation of organelle contact sites and the dynamics of mitochondrial membranes. To this end, they combine various cellular imaging techniques including correlative microscopy and electron cryo-tomography.

  • Gaia Pigino (Max Planck Institute of Molecular Cell Biology and Genetics, Germany)
    • Talk Title: Understanding cilia self-organized assembly by Cryo-EM and time-resolved CLEM

      Gaia Pigino Dr. Gaia Pigino received her PhD in Evolutionary Biology from the University of Siena, Italy in 2007 for her studies on bio-indicators for contaminated soil. Electron microscopy (EM), one of the tools she used for this work, quickly became the central method for her research ever since. After her first postdoc in the EM Lab of the Department of Evolutionary Biology in Siena, she moved to ETH Zurich and the Paul Scherer Institute in Switzerland and was awarded an EMBO fellowship to continue her work on the cryo-EM structural analysis of ciliary components. In 2012, Dr. Pigino started her own lab at the Max Planck Institute of Molecular Cell Biology and Genetics (MPI-CBG) in Dresden, Germany. The work of her lab is centered around the question how complex cellular machines self-organize. Cilia remain the main focus, where the Pigino Lab investigates fundamental functional aspects of the dynamic process required for the assembly of the cilium. Learning about self-organization and functional implications of structural aspects naturally requires to combine and further the latest imaging technologies (3D cryo-EM, tomography, correlative light and electron microscopy (CLEM), and various light microscopy techniques) with tools from biochemistry, in vitro reconstitution, and genetic engineering.

3D-electron Microscopy: Large Data Sets Rich in Information

Session Chair: Tobias Starborg (University of Manchester, UK)

Imaging techniques such as serial section electron tomography, ion beam tomography, serial block face SEM and array tomography are increasing the ease with which we can generate large volumes of high resolution EM data. The techniques can be used alone, or combined with other imaging modalities to give information across many orders of magnitude. This session will examine the latest advances in the techniques used in both the biological and material fields.  The session will also look at how users are learning to work with the large data sets that are being generated.

Invited Speakers
  • Timothy Burnett (University of Manchester, UK)
    • Talk Title: Large volume serial sectioning: adding multiple layers of analytical information in 3D

      Timothy Burnett Dr Tim Burnett is a Lecturer in Materials Imaging at The University of Manchester and also Deputy Director of the Henry Moseley X-ray Imaging Facility. He has been developing ways of connecting different 3D imaging tools, with an emphasis on correlating X-ray computed tomography and electron microscopy to understand the degradation and failure of metal alloys. He has a particular interest in developing new workflows for imaging across scales and across modalities, a process termed correlative tomography when considering 3D imaging techniques, and has been applying this approach to a range of different use cases from Materials Science, Biology and Geology. Dr Tim Burnett started his research career at the University of Leeds in 2004 where during his PhD he synthesized, for the first time, single crystals of the multiferroic material BiFeO3-PbTiO3. Dr Burnett then moved to the Materials Division at The National Physical Laboratory, the UK's National Measurement Institute, before then starting a joint position with FEI company (now ThermoFisher) and The University of Manchester before his current appointment.

  • Louise Hughes (Oxford Brookes University, UK)
    • Talk Title: Tissues, cell and organelles: multimodal imaging strategies for cell biology

      Louise Hughes Louise Hughes is the manager of the Oxford Brookes University Bioimaging unit. Louise specialises in 3D electron microscopy and has been in the field for 18 years. Her research focus is on optimising biological sample preparation, methodology and imaging techniques across a wide range of sample types. She has extensive experience in SBFSEM, array tomography, electron tomography and 3D data reconstruction and currently uses these to study plant cell biology.  

Believing is More than Seeing: Learning and Models in Quantitative Imaging

Session Chair: Jason Swedlow (University of Dundee, UK)

A new generation of supervised learning tools have emerged that may become the methods of choice for advanced image processing and analytics. Where once sophisticated edge detection algorithms were cutting edge, convolutional neural networks (CNNs) now rule. Applications for CNNs in segmentation, restoration, classification, and perhaps most exotically, content-based image retrieval are all demonstrated and may become routine. This session will explore applications for this new approach to computational modelling and will aim to assess whether it is time for widespread adoption across biological imaging.

Invited Speakers
  • Virginie Uhlmann (European Bioinformatics Institute - EMBL-EBI, UK)
    • Talk Title: Continuous models for bioimage analysis

      Virginie Uhlmann Virginie Uhlmann is leading a Bioimage Analysis research group at EMBL-EBI in Cambridge, UK. She received her Master degree in Bioengineering (2012) and her Ph.D in Electrical Engineering (2017) from the Ecole polytechnique fédérale de Lausanne (EPFL, Switzerland). Her work focuses on bioimage analysis, specifically on the development of continuous mathematical models to characterise and quantify biological objects based on image data. Her research interests include approximation, information and interpolation theory, image processing, computer vision, machine learning and life sciences. She is an associate member of the Bio Imaging and Signal Processing technical committee of the IEEE Signal Processing Society.

  • Florian Jug (Max Planck Institute of Molecular Cell Biology and Genetics, Germany)
    • Talk Title: Content-Aware Image Restoration for Light and Electron Microscopy Facilitates Quantitative Data Analysis

      Florian Jug Florian Jug is a research group leader at the Center for System Biology Dresden (CSBD) and the Max-Planck Institute of Molecular Cell Biology and Genetics (MPI-CBG). The overarching goal of his research is to push the boundaries of what image analyses and machine learning can do to quantitatively analyze biological (image)-data. Research in the Jug Lab aims at finding novel ways to efficiently analyze large amounts of microscopy data, while avoiding impossible amounts of manual analyses and curation tasks – often a major bottleneck in biomedical research. Besides finding novel algorithms and machine learning methods, the Jug Lab is also critically involved in the development of Fiji, a popular and widely applicable open software platform for biomedical image analysis and an ideal way to disseminate newly developed methods and tools.

UK Applied Image Analysis (NEUBIAS UK and IAFIG-RMS)

Session Chair: Dominic Waithe (University of Oxford, UK)

The theme of this session is to highlight and showcase image analysis and to publicise some of the resources and opportunities available to this community from within the UK and beyond.  Abstracts are invited to present any form of microscopy image analysis to the community although the emphasis is on shareable technology which is of practical interest. It could be a state-of-the-art technique provided as a shareable plugin or even a reimplementation or optimisation of existing code for example. Innovative pipelines of image analysis are also invited for presentation.

Extracting Meaning from Big Data

Session Chair: Martin Jones (The Francis Crick Institute, UK)

As imaging data sets are increasingly entering the Big Data regime, the methods with which we handle and analyse these data sets are evolving. Technologies for storing and hosting data for private and public access allow sharing and multi-institutional analysis on large scales. New analysis techniques harness the power of large scale computing resources and the latest computational methods, including machine learning.  This session will highlight the ongoing development of these methods, which allow us to interpret and extract meaning from huge complex imaging data sets.

Invited Speakers
  • Minh Doan (Broad Institute, USA)
    • Talk Title: Beyond the conventional information in images

      Minh Doan Dr.Doan was trained as a medical doctor and did PhD in molecular cell biology in University of Debrecen, Hungary. He did his first postdoc in microbiology in Pasteur Institute, Paris, France for nearly 2 years to study functional genomics in infectious diseases. From 2016 until now, he joined Dr. Anne Carpenter's Imaging Platform at the Broad Institute of MIT and Harvard, leading the effort to analyze Imaging flow cytometric data in clinical studies. His research now focuses on developing machine learning methodology, especially deep learning, to automate the analytic processing of single cell images in biological and clinical applications.

  • Anna Kreshuk (European Molecular Biology Laboratory, Germany)
    • Talk Title:

      Anna Kreshuk Anna received a Diploma in Mathematics at the Lomonosov Moscow State University in 2003. After graduation, she worked as a scientific programmer in CERN, mostly on the mathematical and statistical parts of the ROOT framework. In 2008, Anna started her PhD at the Heidelberg Collaboratory for Image Processing at the University of Heidelberg, in the lab of Fred Hamprecht. She then stayed at the lab as a PostDoc, working in collaboration with HHMI Janelia Research Campus through the Janelia visiting scientist program. In July 2018 Anna started her own research group at EMBL Heidelberg, working on automation of image analysis through methods of machine learning.

In situ Electron Microscopy Applied to Inorganic Materials

Session Chair: Chris Parmenter (University of Nottingham, UK)

Imagine being able to harness the imaging power of an electron microscope under the conditions of the systems that you would like to study, be it in liquid, gas, at temperature of with an applied electric field. Until recently this was the preserve of a few specialised labs, however, the rise of in situ EM fuelled by MEMS device sample holders has seen a wave of research that was previously out of reach or considered not feasible. In this session we will explore the use of such technology, in particular with heating and biasing stages for research in materials sciences.

Invited Speakers
  • Layla Mehdi (University of Liverpool, UK)
  • Marc Willinger (ETH Zurich, Switzerland)
    • Talk Title: Spatio-temporal dynamics of oscillatory heterogeneous reactions studied by multi-scale in-situ electron microscopy

      Marc Willinger Dr. Willinger studied physics at the Technical University in Vienna, Austria and did his master in the field of electron energy loss spectroscopy and DFT simulation of the electronic structure under the supervision of Prof. Peter Schattschneider and Prof. Robert Schlögl, Director of the Department of Inorganic Chemistry at the Fritz-Haber-Institute (FHI) of the Max Planck Society in Berlin. Dr. Willinger obtained his PhD from the Technical University in Berlin for the investigation of the electronic structure of vanadium phosphorous oxides. After a 1.5 years post-doc at the Fritz-Haber-Institute, he moved to the University of Aveiro in Portugal, where he worked as an independent researcher for 4 years. In 2011 he went back to the Fritz-Haber-Institute as group leader for electron microscopy. Since 01.02.2018 he has been at the “Eidgenössische Technische Hochschule” (ETH) in Zürich, where he is focusing on the development and implementation of in-situ electron microscopy techniques.

In situ Electron Microscopy Applied to Soft Matter and Biological Systems

Session Chair: Chris Parmenter (University of Nottingham, UK)

Imagine being able to harness the imaging power of an electron microscope under the conditions of the systems that you would like to study, be it in liquid, gas, at temperature of with an applied electric field. Until recently this was the preserve of a few specialised labs, however, the rise of in situ EM fuelled by MEMS device sample holders has seen a wave of research that was previously out of reach or considered not feasible. In this session we will explore the use of such technology, in particular with liquid cells for research in soft matter and biological sciences.

Invited Speakers
  • Joe Patterson (University of California, Irvine, USA)
    • Talk title: Translating Insights from Liquid Phase Electron Microscopy into Theory and Design

      Joe Patterson Joe Patterson in an Assistant Professor in the Department of Chemistry at the University of California, Irvine. He completed his PhD in Chemistry at the University of Warwick, UK, in 2013, working under the supervision of Professor Rachel O’Reilly. He went on to work for Professor Nathan C. Gianneschi and Professor Kimberly Prather at the University of California San Diego, USA, and the Centre for Aerosol Impacts on Climate and Environment (CAICE) as a postdoctoral scholar. In 2016, he joined the Eindhoven University of Technology in the Netherlands, working in the Laboratory of Materials and Interface Chemistry led by Professor Nico Sommerdijk. Joe’s research interests involve the development of new materials through a deep understanding of their structure and dynamics. He has a strong focus on understanding soft matter formation mechanisms using a combination of cryogenic and liquid phase electron microscopy. He is a recipient of the Domino/MacroGroupUK Young Polymer Scientist award, the Jon Weaver PhD prize, and a Marie Skłodowska-Curie Individual fellowship.

  • Deborah Kelly (Virginia Tech, USA)

FIB Microscopy and Sample Preparation

Session Chair: Xiang li Zhong (University of Manchester, UK)

FIB microscopes have become highly flexible micro-laboratories, enabling high resolution sample preparation, 2D and 3D characterisation, nano-fabrication and rapid prototyping, in applications spanning from physical to biological sciences. This session will cover two important areas: (1) Novel FIB methodologies and applications and (2) Sample preparation systems/applications. Effective sample preparation is often the key to successful microscopy, and we encourage contributions that use FIB or a wide range of other techniques. The in-cooperated FIB & Prep User Group meeting provides an open forum to share experimental, theoretical and instrumentation advances and tips.

Multimode Ion Beam Microscopy: Hybrid-techniques and Spectroscopy

Session Chair: Trevor Almeida (University of Glasgow, UK)

The ability to combine focused ion beam (FIB) methods with the wide range of scanning electron microscopy (SEM) associated techniques, and advanced spectroscopies such as SIMS, has made modern FIB/FIB-SEMs multi-dimensional tools for nano-scale fabrication and chemical/structural analysis. In this symposium, we welcome contributions spanning analytical FIB imaging and spectroscopy (including EDS/SIMS), Xe, He and Ne FIB, hybrid FIB-SEM techniques, micro or nano-scale milling and 3-dimensional tomography/reconstruction, as well as electron- and ion-beam induced deposition. Innovative developments and novel studies from a variety of fields including engineering, Earth and material science, for fundamental research or technological applications, are intended to demonstrate the true versatility of modern FIB instruments.

Invited Speakers
  • Amalio Fernandez-Pacheco (University of Glasgow, UK)
    • Talk Title: 3D printing at the nanoscale in an electron microscope

      Amalio Fernandez-Pacheo Dr Amalio Fernández-Pacheco is an EPSRC Early Career Fellow at the Materials and Condensed Matter Physics group within the School of Physics and Astronomy at the University of Glasgow (UK). He was previously working at Zaragoza (Spain), Imperial College London and at the Cavendish Laboratory in Cambridge. Amalio investigates new effects in 3D magnetic nanostructures for spintronic applications. His main research activities comprise the development of novel 3D nano-patterning processes, chiral effects in multi-layered heterostructures and advanced nano-magnetometry and magnetic microscopy for characterisation of 3D nanostructures. He is recognised worldwide as one of the pioneers in the fabrication of magnetic systems using Focused Electron Beam Induced Deposition, a direct-write nanofabrication method carried out in electron microscopes. Among his awards, he received in 2010 the Springer Theses award in recognition of his PhD work and a Marie Curie Fellowship, and in 2017 his group received the Cavendish Laboratory Abdus Salam Prize. In 2014 he became EPSRC Fellow, Winton Advanced Fellow and Fellow of Sidney Sussex College Cambridge. Recently, he has been an invited speaker at leading magnetic and physics conferences such as ICMFS-2018, MMM-2017 and APS March Meeting-2017, as well as in a TedX event. He has  also acted as Programme Committee member of conferences such as MMM-2016 and ICM-2018. In 2020, he will chair the 8th International workshop on Focused Electron Beam-Induced Processing (FEBIP) taking place in Glasgow.

  • Annalena Wolff (Queensland University of Technology, Australia)
    • Talk Title: Focused ion beams in biology: How HIM and FIB/SEMs help reveal nature’s tiniest structures

      Annalena Wolff Annalena Wolff is a research infrastructure specialist for Focused Ion Beams at the Institute for Future Environments at the Queensland University of Technology, where she is responsible for the helium ion microscope (HIM), a FIB/SEM and a plasma focused ion beam. Lena studied at Bielefeld University and received her Ph.D. degree in Physics in 2014 before moving to Australia where she worked at the Monash Centre for Electron Microscopy. Lena was recruited to the Queensland University of Technology in 2015 and has established herself there as an expert in focused ion beams across several platforms. She has lead several pre-conference workshops on FIB/HIM techniques  and completed a HIM world tour where she built networks in 4 continents over 11 weeks. Lena’s research interests include: developing new approaches to SEM/FIB and HIM applications, ion-solid interactions, fabrication of 2D and 3D micro/nanostructures, sample characterization and 3D tomography.

X-ray Microscopy: Beyond Attenuation Contrast Tomography

Session Chair: Michael Doube (City University of Hong Kong's College of Veterinary Medicine and Life Sciences)

X-ray microscopy encompasses projection, tomographic, scattering, and spectroscopic imaging techniques, of static or dynamic specimens. This session will explore imaging approaches and results that exploit physical properties of X-rays and microscopic objects, in modes other than static attenuation contrast. Studies using cutting edge synchrotron beamlines and more accessible laboratory systems and protocols will be welcomed.

Invited Speakers
  • Richard Johnston (Swansea University, UK)
    • Talk Title: Multi-modal and multi-length scale correlative imaging of hierarchical biological materials

      Richard Johnston Professor in materials science and engineering at Swansea University in the UK. Co-Director of the £10M Advanced Imaging of Materials (AIM) facility at Swansea, of the £13.7M Materials and Manufacturing Academy for postgraduate training, and the STFC Regional Beamline-Bridging Facility. Founder and Director of the Research as Art awards, which have reached over 50 million people worldwide since 2009, A Software Sustainability Institute Fellow, and a previous British Science Association Media Fellow at Nature. Written for Nature, Scientific American, The Guardian, Huffington Post. Contributed to and appeared on TV and radio, including the BBC Horizon programme.

  • Sarah Köster (University of Göttingen, Germany)
    • Talk Title: Scanning Small-Angle X-Ray Scattering for Imaging Biological Cells

      Sarah Köster Sarah Köster, studied physics at the University of Ulm, Germany, and performed her PhD work at the University of Ulm, Boston University and the Max Planck Institute for Dynamics and Self-Organization, Göttingen, Germany. She received her PhD from the University of Göttingen in 2006. Her thesis was awarded the Berliner-Ungewitter-Preis of the Göttingen physics faculty as well as the Otto Hahn Medal of the Max Planck Society. In 2008, after two years of postdoctoral work at Harvard University with David Weitz, she returned to Göttingen as an assistant professor. In 2010 she was awarded the Helene-Lange-Preis of the EWE-Foundation. In 2011 she was promoted to associate professor, and in 2017 to full professor, in the faculty of physics of the University of Göttingen, where she leads the research group Cellular Biophysics. In 2016 she received an ERC Consolidator Grant. Her research interests reach from x-ray imaging and scattering of biological matter to cell and cytoskeletal mechanics and dynamics.

Quantitative Microscopy in Earth, Planetary and Archaeological Sciences

Session Chair: Duncan Muir (Cardiff University, UK)

Quantitative microscopic investigation is critical for advancing our understanding of scientific problems today. Researchers have access to a broad range of analytical equipment including, but not limited to, light, electron and gas ion microscopy, secondary ion mass spectrometry, 3-D correlative microscopy, X-ray tomography and associated spectroscopic techniques. We invite presentations on examples from Earth, Planetary and Archaeological Sciences where novel microscopy techniques have been used to help construct quantitative datasets preferably with practical outcomes and applications which advance scientific and/or technical understanding.

Invited Speakers
  • Cees-Jan de Hoog (University of Edinburgh, UK)
    • Talk Title: Application of Secondary Ion Mass Spectrometry (SIMS) to the study of Earth and Planetary Processes

      Cees-Jan De Hoog Dr. De Hoog is a Research Fellow in the School of GeoSciences at the University of Edinburgh and a staff member of the Edinburgh Ion Microprobe Facility. He has an MSc in Geochemistry from Utrecht University in the Netherlands, where he also did a PhD on the behaviour of volatiles in arc volcanism in Indonesia. He then did postdoctoral research in Ottawa, Canada, before moving to Gothenburg, Sweden, to be laser ablation-ICP-MS lab manager. Here his research focus shifted to ultrahigh pressure metamorphic rocks and mantle petrology. After a few years at Oxford University running the magnetic sector ICP-MS lab, he moved to Edinburgh in 2009, where he stayed ever since. His current research interests are the cycle of volatile elements and their isotopes in subduction zones and the deep Earth, and in particular the use of in-situ measurements by SIMS.

  • Jennifer Murgatroyd (RSK Environment, UK)
    • Talk Title: What quantitative petrography revealed about ancient Roman builders in Ostia

      Jennifer Murgatroyd Dr Jennifer Murgatroyd is a senior geomaterials scientist with the Materials & Structures Department at RSK Environment. Jennifer is a trained archaeological scientist with over 15 years’ experience investigating structures and building materials from high-profile sites in Pompeii, Rome and Ostia, Italy, as well as many nationally listed historic buildings across the UK. She completed her D.Phil at St. Cross College, Oxford in 2016, researching ancient Roman concretes. She is an affiliate member of the IHBC and an honorary visiting researcher at the Department of Archaeological Sciences at the University of Bradford.

Microscopy of Materials for Health Care

Session Chair: Roland Kroger (University of York, UK)

Material Science in Health Care has become an integral part of research aiming to develop new approaches e.g. for cellular level treatments of diseases such as cancer or for the development of mineralised tissue for bone or tooth replacements. Increasing advances in treatments, devices and diagnostics have been accompanied by increasingly stringent regulatory demands.  This research area requires excellent control of materials’ properties and robust characterisation tools to visualise structure and composition with high spatial resolution. Therefore advanced electron microscopy as well as X-ray and light based characterisation tools will be in the focus of this session.

Invited Speakers
  • Henrik Birkedal (Aarhus University, Denmark)
    • Talk Title: Multimodal X-ray imaging of bone

      Henrik Birkedal Henrik Birkedal obtained his PhD with honors from Université de Lausanne, Switzerland, followed by a postdoc at University of California, Santa Barbara. In 2004, he was awarded a stipend to establish his own research program at Aarhus University where he is now an associate professor and leads a research group within the area of biological and bioinspired materials. Of special interest is the structure of bone at length scales below ~10 µm including the osteocyte lacuno-canalicular network and the properties and organization of bone biominerals. These are chiefly studied by synchrotron X-ray imaging techniques including nanotomography and multimodal tomographies such as X-ray fluorescence tomography and diffraction/scattering computed tomography; the continuous improvement of these methods is an additional area of interest.

  • Lucy Collinson (The Francis Crick Institute, UK)
    • Talk Title: Correlative imaging applied to new biomaterials

      Lucy Collinson Lucy Collinson leads the Electron Microscopy Science Technology Platform (EM STP) at The Francis Crick Institute in London. She has a degree and PhD in Medical Microbiology, and carried out post-doctoral research with Professor Colin Hopkins at the MRC Laboratory for Molecular Cell Biology (UCL) and Imperial College London, investigating membrane trafficking pathways in lysosome-related organelles in mammalian cells using light and electron microscopy as key techniques. She has 14 years experience in running biological EM facilities, first at UCL and then at the Cancer Research UK London Research Institute, which became part of the new Francis Crick Institute in 2015. With a team of 10 electron microscopists and 3 physicists, she oversees more than 100 research projects with more than 60 research groups within the Crick, imaging across scales from proteins to whole organisms. Her microscopy and technology development interests include volume EM, correlative imaging techniques, cryo-microscopy, X-ray microscopy, image analysis, and microscope design and prototyping. In the last year, she has co-authored 16 publications, given 15 international plenary and invited talks, and sits on 6 national and international scientific advisory boards and expert review panels.

Tissue Cytometry

Session Chair: Derek Davies (The Francis Crick Institute, UK)

Conventional microscopy of tissue sections allows the visualisation of tissue architecture but the definition of complex phenotypic signatures via labelled probes in individual cells is challenging. Recently the power of multiplexing that has been used in flow cytometry for some time has been translated to sections by techniques such as imaging mass cytometry, multiplexed ion beam imaging and laser scanning cytometry. This session will bring together these technologies to explore how 2D and 3D reconstruction of tissues can provide new insights into the relationship between cell types in health and disease.

Invited Speakers


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