2020 SSRL/LCLS Users' Meeting

Program

Program

Photo: SUSB Building

REGISTER & SUBMIT POSTER BEFORE SEPTEMBER 14.

The joint Stanford Synchrotron Radiation Lightsource (SSRL) and the Linac Coherent Light Source (LCLS) users' conference will be held VIRTUALLY!  To facilitate participation by our international user community, we are planning for shorter sessions with time for breakout discssions, primarily scheduled in the mornings and early afternoon (Pacific). So, save the dates September 28-October 9, 2020. Check back later for more program and registration details. 

Monday, September 28 am - Workshops

Cryo EM Workshop

From the Molecular to the Macro-Scale: Spectroscopic Imaging in the Earth Sciences Across the Photon Spectrum

Metals in Structural Biology I

Science with Femtosecond Pulse Trains

Tuesday, September 29 am - Workshops

LCLS-II Early Science - ChemRIXS

How to Present Scientific Content in Different Contexts

Metals in Structural Biology II

Wednesday, September 30 am - Plenary Session

Welcome & Updates from SLAC, LCLS, SSRL, DOE Office of Basic Energy Sciences

Invited Talks:

  • Cynthia Bolme (LANL):  New Light on the Complex Dynamics of Materials under Extreme Conditions
  • Yi Cui (Stanford):  Cryogenic Electron Microscopy for Materials and Energy Sciences
  • Doug Rees (Caltech):  Electrons, Protons and Proteins in Biological Nitrogen Fixation

Virutal LCLS/SSRL Town Hall Discussion with LCLS/SSRL Directors

    Thursday, October 1 am - Vitual Poster Session

    Friday, October 2 am - Plenary Session

    Young Investigator Talks & Award Presentations:

    Monday, October 5 am - Workshops

    Activating and Monitoring Biological Processes in Time-Resolved Experiments

    Ghost Imaging with X-rays and Electrons

    Opportunities in Chemistry & Catalysis Research Using Quick Scanning XAS

    The Matter in Extreme Conditions Upgrade Project

    Tuesday, October 6 am - Workshops

    LCLS Early Science TMO

    New Modes Using Synchrotron Light for In-Situ and Operando Experiments - Synthesis of Molecules and Materials

    Theoretical spectroscopy methods and workflows for accurate and high throughput X-ray spectroscopy prediction

    Wednesday, October 7 am- Workshops

    Characterization of Static and Dynamic Disorder in Condensed Phase Materials

    LCLS-II Data Systems, Reduction, Acquisition and Analysis

    Ultrafast studies on low-energy excitations in quantum materials

    X-ray Science Applications for COVID-19 Research

    Thursday, October 8 am - Workshops

    Anatomy and Physiology of X-ray Pixel Detectors

    Applications of Machine Learning in the Structural Sciences

    Friday, October 9 am - Workshops

    Functional X-ray Imaging

    LCLS-II Instrument refinement

    Resonant Elastic and Inelastic X-ray Scattering applications for Quantum and Energy Materials

     

    Workshop Program Details:

     
    • Activating and Monitoring Biological Processes in Time-Resolved Experiments
      • Organizers:  James Fraser (UCSF Fraser Lab), Diana Monteiro (Hauptman Woodward Institute)
      • Summary:  Time-resolved studies of biological macromolecules have yielded unprecedented details about structural transitions during biological function. Furthermore, these experiments have driven the development of new methods for sample triggering, delivery and data collection, as well as the commissioning of specialized experimental end-stations. While proteins that bind natural chromophores have been a major interest in the field, there is now increasing interest to broaden the ability of time resolved experiments to other targets. New strategies (including mixing, electric fields, temperature and pressure jumps, and syntheses of caged substrates) will be discussed along with potential classes of macromolecules that can now be studied by time resolved methods. A discussion of how these new strategies can be employed at specialized experimental end-stations at Synchrotrons and Free Electron Lasers will give the users an overview of current data collection capabilities and point the way forward for future developments.
      • Invited Speakers:
        • Marie Gruenbein (Max Planck Institute for Medical Research):  (Time-resolved) SFX experiments with viscous jets
        • Alexandra Ros (Arizona State University):  Microfluidic Tools Facilitating Time-Resolved Crystallography 
        • Pedram Mehrabi (Max Planck Institute for the Structure and Dynamics of Matter) Time-resolved serial synchrotron crystallography for the dynamic characterization of enzymes      
        • David Von Stetten (EMBL):  Serial time-resolved crystallography at the T-REXX endstation (PETRA-III)        
        • Michael Thompson (University of California Merced): Turning up the heat on dynamic proteins with multi-temperature and temperature-jump crystallography             
        • Jennifer Wierman (SLAC/SSRL): Timely solutions: Serial sample delivery and automation at SSRL and LCLS      
        • Doeke Hekstra (Harvard U):  TBA
      • Program Details: Check back later

     

    • Applications of Machine Learning in the Structural Sciences
      • Organizers:  Blaine Mooers (U Oklahoma), Tzanko Doukov (SLAC/SSRL)
      • Summary:  The workshop highlights the applications of machine learning in the areas of the X-ray diffraction, Small Angle X-ray Scattering, and Electron microscopy. Machine learning is broadly and loosely defined. Several presentations include the application of Bayesian methods.
      • Speakers
        • Andrea Thorn (University of Wuerzburg) Haruspex: A Neural Network for the Automatic Identification of Oligonucleotides and Protein Secondary Structure in Cryo-EM
        • Randy Read (Cambridge University): Measuring and using information gained by observing diffraction data
        • Gergerly Katona (University of Guthenborg): Bayesian machine learning improves single-wavelength anomalous diffraction phasing
        • Wei Xu (Brookhaven National Laboratory): Visual Understanding of Multiple Attributes Learning Model of X-Ray Scattering Images
        • Wladek Minor (U of Virginia): Automatic recognition of ligands in electron density by machine learning
        • Thomas Grant (State University of New York at Buffalo):  Ab initio electron density determination directly from solution scattering data
        • Sjors Scheres (Cambridge U):  A Bayesian approach to beam-induced motion correction in cryo-EM single-particle analysis
        • Kevin G. Yager (BNL):  Healing X-ray scattering images
        • Daniel Franke (EMBL-Hamberg):  Machine Learning Methods for X-Ray Scattering Data Analysis from Biomacromolecular Solutions
      • Program Details:  Check back later

     

    • Characterization of Static and Dynamic Disorder in Condensed Phase Materials
      • Organizers:  Steve Conradson (Washington State University)
      • Summary:  Science’s conception of the atomic scale structure of crystalline materials derives from the Bragg peaks in X-ray diffraction and their obligatory origin in the periodic crystal lattice. But if Bragg had had access to synchrotron radiation and its associated local structure methods we would view materials quite differently. Although periodicity has been infiinitely useful in understanding the properties of matter, it is also quite limiting in that almost all materials of technological and scientific interest contain impurities or other defects in their crystal structures, sometimes inadvertent or as the consequence of aging but just as often deliberately introduced, that determine their behaviors and utility. Since these break the periodicity and symmetry their signatures in crystallography are often small and ambiguous and conventional refinement methods give results that can be removed from reality. Elucidating structure:funciton relationships - in complex structural materials, electronic and correlated materials, catalysts, and even environmental and forensic samples - therefore requires complete structure determination that includes complementary crystallography that determines the long range average structure of the periodic portion of the material and local structure methods, e.g., XAFS and pair distribution funciton analysis, that are sensitive to local order. Other methods can also be essential, e.g., microscopy that reveals unexpected interactions and “chemistry” between separate phases. In addition, these x-ray techniques also provide information on dynamical aspects of the structure via their inelastic or instantaneous methods that are complementary to elastic and inelastic neutron scattering. The missing idea that necessitates this range of experimental measurements is strong interactions, i.e., collective and cooperative behavior, between these “defects” or inhomogeneities that can cause them to cluster or self organize in other ways, especially in non-equilibrium systems.
      • Speakers/Program Details:  Check back later

     

    • Cryo EM Workshop*
      • Organizers:  Wah Chiu (Stanford U)
      • Summary:  This session highlights the recent use of cryoEM structure determination of SARS-COVID-2 related macromolecules. Speakers will cover structures of different molecular components of the virus and the cellular interacting partners. Some of talks will describe the impact of the structural results on vaccine and drug developments.
      • Invited Speakers
        • David Vesseler (U Washington Seattle): Structural studies of the SARS-CoV Spike Glycoprotein
        • David Stuart (Oxford U and Diamond Light Source): The use of cryoEM structural information to advance SARS2-CoV-2 biology and therapy”
        • Erica Saphire (La Jolla Institute for Immunology): Antibodies against Emerging Viral Disease
        • Rhiju Das (Stanford U): CryoEM of previously unsolvable RNA structures including coronavirus genome elements
        • Stephan Wilkens (SUNY Upstate Medical University, Syracuse): Targeting Vacuolar H+-ATPase for Antiretroviral Therapy
        • Goran Kokic (Max Planck Institute for Biophysical Chemistry, Göttingen): Structure of replicating SARS-COV-2 polymerase
      • Program Details:  Check back later

    *The S2C2 is supported by the National Institutes of Health Common Fund Transformative High Resolution Cryo-Electron Microscopy program.

     

     

    • Functional X-ray Imaging
      • Organizers:  Yijin Liu (SLAC/SSRL)
      • Summary:  X-ray microscopy has been serving the scientific community for over a century. In particular, when coupled with advanced x-ray facilities, x-ray microscopy can be executed in different experimental modalities, cover multiple length scales, and offer complimentary contrast mechanisms. The x-ray microscopy techniques have advanced dramatically over the past decade or so, demonstrating capabilities well-beyond visualizing the structural representation of the specimens in their static and ambient state. The compositional and chemical sensitivity and the combined temporal and spatial resolving power have brought modern x-ray microscopy techniques closer to the ultimate goal of the imaging experiments, i.e. to understand the relationship between the morphological structure and the functionality. In this workshop, we bring together experts in x-ray microscopy and the relevant applications in a number of scientific disciplines. We anticipate that the interactions among the attendees with different scientific backgrounds will ignite new ideas for scientific collaboration in this field.
      • Invited Speakers
      • Program Details:  Check back later

     

    • Metals in Structural Biology
      • Organizers:  Sarah Bowman (Hauptman Woodward Institute), Jennifer Bridwell-Rabb (U Michigan), Jeney Wierman (SLAC/SSRL)
      • Summary:  Metals play critical roles in biology, conferring unique reactivity, enabling challenging chemistry and redox reactions, and functioning as structural scaffolds. It has been estimated that 30-50% of all proteins bind a metal or metal cofactor. Synchrotron-based techniques enable experiments that measure and monitor metal active site geometry and protein structure, as well as permitting elemental analysis to probe exactly what metals are present in a sample. In the Metals in Structural Biology workshop we will emphasize the use of spectroscopic, X-ray crystallography, XFEL and cryo-EM methods to study metalloprotein structure and function.
      • Panelists, Monday, September 28:
      • Panelists, Tuesday, September 29:
      • Program Details:  Check back later

     

    • Opportunities in Chemistry & Catalysis Research Using Quick Scanning XAS
      • Organizers:  Simon Bare, Alan Hoffman, Oliver Mueller (SLAC/SSRL)
      • Summary:  SSRL will be implementing a dedicated quick scanning monochromator for X-ray absorption spectroscopy (QEXAS) on BL10-2 in the fall of 2021, making it the first such monochromator on an wiggler beamline. This exciting capability will open up new scientific opportunities in many areas of chemistry and catalysis. This workshop will bring together experts in the field and help define new opportunities especially in kinetics and dynamics of catalytic processes.
      • Invited Speakers
        • Valérie Brios (Synchrotron Soleil): ROCK, the SOLEIL’s Quick-EXAFS beamline: ms time resolution, multivariate analysis and hyperspectral imaging for operando characterizations
        • Vadim Murzim (University of Wuppertal / Deutsches Elektronen-Synchrotron (DESY):  Time-resolved XAS studies of catalysts and nanomaterials at P64
        • Charlotte Vogt (Weizmann Institute for Science):  Quick-XAS to Understand Structure Sensitivity in Catalysis
        • Adam Hugh Clark (Paul Scherrer Institute)  TBA
        • Mark Newton (ETH Zurich (C):  TBA
        • Jan-Dierrk Grunwaldt (Karlsruhe Institute of Technology):  TBA
        • Maarten Nachtegaal (Paul Scherrer Institute):  TBA
        • Oliver Mueller (SLAC/SSRL):  TBA
      • Tentative Program:

    Time (PST)

    Title

    Speaker

    Institution

    07:15 – 07:30

    Introduction

    Simon, Adam and Oliver

    SLAC/SSRL

    07:30 – 08:00

    ROCK, the SOLEIL’s Quick-EXAFS beamline: ms time resolution, multivariate analysis and hyperspectral imaging for operando characterizations

    Valérie Brios

    Soleil

    08:00 – 08:30

    Time-resolved XAS studies of catalysts and nanomaterials at P64

    Vadim Murzim

    University of Wuppertal / Deutsches Elektronen-Synchrotron (DESY)

    08:30 – 09:00

    QXAS beamline at SSRL: BL10-2

    Oliver Mueller & Adam Hoffman

    SLAC National Accelerator Laboratory

    09:00 – 09:30

    Quick-XAS to Understand Structure Sensitivity in Catalysis

    Charlotte Vogt

    Weizmann Institute for Science

    09:30 – 09:45

    BREAK

     

     

    09:45 – 10:15

    tba

    Adam Hugh Clark

    Paul Scherrer Institute

    10:15 – 10:45

    tba

    Mark Newton

    ETH Zurich

    10:45 – 11:15

    tba

    Jan-Dierk Grunwaldt

    Karlsruhe Institute of Technology

    11:15 – 11:30

    BREAK

     

     

    11:30 – 12:00

    tba

    Maarten Nachtegaal

    Paul Scherrer Institute

    12:00 – 12:30

    Discussion

    All participants

     

     

    • X-ray Science Applications for COVID-19 Research
      • Organizers:  Aina Cohen, Clyde Smith (SLAC/SSRL)
      • Summary:  During the COVID pandemic in March 2020, SSRL resumed operations, under a minimum operations mode, to support critical COVID-19 related research.  This session will highlight some recent results that employed X-ray light source facilities to further our understanding of COVID-19 and aid in the search for an effective vaccine or other treatments.
      • Invited Speakers:
        • Chris Barnes (Caltech):  TBA
        • Ben Bostick (Columbia U):  TBA
        • James Fraser (UCSF Fraser Lab):  Finding ligands for the Nsp3 Macrodomain of SARS-CoV-2
        • M. Joanne Lemieux (U Alberta): Structural insights into the feline coronavirus drug GC376, which inhibits the main protease of SARS-CoV-2 and blocks virus replication
        • Ian Wilson (The Scripps Research Institute):  Structural evaluation of the neutralizing antibody response to SARS CoV-2
        • Gerald Wong (UCLA):  TBA
      • Program Details:  Check back later

     

    See update and photos from the 2019 users' meeting.