What's New: Fiscal Year 2016

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  1. An Introduction to X-Ray Diffraction Physics

    10 Aug 2016 | Teaching Materials | Contributor(s): Blessing

    These notes present basic principles of the physics that underlies X-ray analysis of the atomic structure of matter. In particular, classical electromagnetic wave theory of X-ray scattering by …

    https://www.bioxfel.org/resources/diffraction-physics

  2. The Structural History of RNA Polymerase Transcription Machinery

    18 Feb 2016 | Teaching Materials | Contributor(s): Roger Kornberg

    Dr. Roger Kornberg, 2006 Nobel Laureate in Chemistry, discusses the structural history of the RNA polymerase II transcription machinery and how it played a role in his successful career.

    https://www.bioxfel.org/resources/914

  3. Interview with Dilano Saldin

    05 Jan 2016 | Teaching Materials

    Combining data from new facilities with mathematical methods, Professor Dilano Saldin is in pursuit of a technique to determine the structure of molecules without the need for purification …

    https://www.bioxfel.org/resources/868

  4. Multitemperature data and diffuse scattering in X-ray crystallography

    07 Dec 2015 | Teaching Materials | Contributor(s): James Fraser

    Dr. James Fraser will discuss recent advances in mapping the structural basis of protein conformational dynamics using multitemperature data and diffuse scattering from both conventional synchrotron …

    https://www.bioxfel.org/resources/865

  5. BioXFEL Graduate Student Cross-Training Scholarship

    11 Nov 2015 | Teaching Materials

    BioXFEL is committed to providing our students with opportunities to diversify their skill sets and integrate themselves into our highly multidisciplinary Center. In addition to the workshops, …

    https://www.bioxfel.org/resources/CTS

  6. BioXFEL Scholar Application Form

    10 Nov 2015 | Teaching Materials

    https://www.bioxfel.org/resources/658

  7. Serial femtosecond crystallography of soluble proteins in lipidic cubic phase

    10 Nov 2015 | Teaching Materials

    Serial femtosecond crystallography (SFX) at X-ray free-electron lasers (XFELs) enables high-resolution protein structure determination using micrometre-sized crystals at room temperature with minimal …

    https://www.bioxfel.org/resources/681

  8. Indexing ambiguity in SFX resolved using expectation maximization algorithm

    10 Nov 2015 | Teaching Materials

    Crystallographic auto-indexing algorithms provide crystal orientations and unit-cell parameters and assign Miller indices based on the geometric relations between the Bragg peaks observed in …

    https://www.bioxfel.org/resources/680

  9. Introduction to XRayView Crystallographic Software

    04 Nov 2015 | Teaching Materials

    Dr. George Phillips introduces the basic concepts of crystallography focusing on the reciprocal lattice and Ewald sphere construction and using the XRayView software developed in his lab to help …

    https://www.bioxfel.org/resources/679

  10. Overview of Serial Femtosecond Crystallography

    14 Oct 2015 | Teaching Materials | Contributor(s): Petra Fromme

    Dr. Petra Fromme discusses an introductory overview to the field of serial crystallography and recent results showing the potential power of the technique.

    https://www.bioxfel.org/resources/668

  11. Virus Crystallography

    14 Oct 2015 | Teaching Materials | Contributor(s): Robert M Lawrence

    Dr. Rob Lawrence describes the unique problems associated with crystallization of virus particles and different methods to overcome them.

    https://www.bioxfel.org/resources/667

  12. When Your Crystals Bite

    14 Oct 2015 | Teaching Materials | Contributor(s): George Phillips

    Dr. George Phillips describes properties of crystals such as twinning and other defects and how they can adversely affect crystallographic analysis.

    https://www.bioxfel.org/resources/666

  13. Optimizing crystallization hits - small to large and large to small

    14 Oct 2015 | Teaching Materials | Contributor(s): Joseph Luft

    Joe Luft describes methods for optimizing initial results from crystallization screening trials for both macro and nanocrystals.

    https://www.bioxfel.org/resources/665

  14. Practical Considerations for Crystallographic Data Analysis

    14 Oct 2015 | Teaching Materials | Contributor(s): Tom Grant

    Dr. Thomas Grant explains how crystal quality affects diffraction data and how you can detect and ameliorate problems in crystallographic data.

    https://www.bioxfel.org/resources/664

  15. Applications of TEM for Evaluation and Optimization of Crystal Growth

    14 Oct 2015 | Teaching Materials | Contributor(s): Guillermo Calero

    Dr. Guillero Calero discusses using transmission electron microscopy to characterize, evaluate and subsequently optimize the growth of crystals.

    https://www.bioxfel.org/resources/663

  16. What is the outcome of your crystallization experiment

    14 Oct 2015 | Teaching Materials | Contributor(s): Joseph Luft

    Joe Luft discusses the detection of hits in crystallization screening experiments for both macro and nanocrystals.

    https://www.bioxfel.org/resources/662

  17. Strategies to sample crystallization space

    14 Oct 2015 | Teaching Materials | Contributor(s): Joseph Luft

    Joe Luft discusses crystallization screening strategies to maximize the likelihood of success.

    https://www.bioxfel.org/resources/661

  18. Fundamentals of Crystal Growth

    14 Oct 2015 | Teaching Materials | Contributor(s): Edward Snell, Eaton E Lattman

    Dr. Ed Lattman discusses the foundations of crystallography and theoretical and practical considerations including X-ray radiation and production and crystallization nucleation, growth and …

    https://www.bioxfel.org/resources/660

  19. Using XFELs to measure the solution structures of biomolecules

    13 Oct 2015 | Teaching Materials

    Dr. Lois Pollack presents an introduction to small and wide angle X-ray solution scattering techniques and describes the advances made possible by XFELs.

    https://www.bioxfel.org/resources/657

  20. Single Particle Reconstruction

    13 Oct 2015 | Teaching Materials

    Dr. Dilano Saldin discusses recent advances in algorithms for single particle reconstruction from solution scattering data at XFELs.

    https://www.bioxfel.org/resources/656

  21. Extraction of fast changes in the structure of a disordered ensemble of photoexcited biomolecules

    13 Oct 2015 | Teaching Materials

    Using pump-probe experiments of varying time intervals between pump and probe, the method of time-resolved crystallography has given many insights into the fast time variations of crystallized …

    https://www.bioxfel.org/resources/655

  22. Ab-initio phasing using nanocrystal shape transforms with incomplete unit cells

    13 Oct 2015 | Teaching Materials

    X-ray free electron lasers are used in measuring diffraction patterns from nanocrystals in the `diffract-before-destroy' mode by outrunning radiation damage. The finite-sized nanocrystals provide an …

    https://www.bioxfel.org/resources/654

  23. Post-refinement method for snapshot serial crystallography

    13 Oct 2015 | Teaching Materials

    A post-refinement procedure has been devised for ‘snapshot’ diffraction data consisting entirely of partially recorded reflections, each diffraction pattern from a crystal in an orientation …

    https://www.bioxfel.org/resources/653

  24. Mapping the continuous reciprocal space intensity of X-ray serial crystallography

    13 Oct 2015 | Teaching Materials

    Serial crystallography using X-ray free-electron lasers enables the collection of tens of thousands of measurements from an equal number of individual crystals, each of which can be smaller than 1 …

    https://www.bioxfel.org/resources/652

  25. Visualizing a protein quake with time-resolved X-ray scattering at a free-electron laser

    13 Oct 2015 | Teaching Materials

    We describe a method to measure ultrafast protein structural changes using time-resolved wide-angle X-ray scattering at an X-ray free-electron laser. We demonstrated this approach using multiphoton …

    https://www.bioxfel.org/resources/651

  26. Double-focusing mixing jet for XFEL study of chemical kinetics

    13 Oct 2015 | Teaching Materials

    Several liquid sample injection methods have been developed to satisfy the requirements for serial femtosecond X-ray nanocrystallography, which enables radiation-damage-free determination of …

    https://www.bioxfel.org/resources/650

  27. High-resolution structure of viruses from random diffraction snapshots

    13 Oct 2015 | Teaching Materials

    The advent of the X-ray free-electron laser (XFEL) has made it possible to record diffraction snapshots of biological entities injected into the X-ray beam before the onset of radiation damage. …

    https://www.bioxfel.org/resources/649

  28. Deducing fast electron density changes in uncrystallized biomolecules

    13 Oct 2015 | Teaching Materials

    We propose a method for deducing time-resolved structural changes in uncrystallized biomolecules in solution. The method relies on measuring the angular correlations of the intensities, when averaged …

    https://www.bioxfel.org/resources/648

  29. Serial femtosecond crystallography of G-protein coupled receptors

    13 Oct 2015 | Teaching Materials

    G protein–coupled receptors (GPCRs) are eukaryotic membrane proteins that have a central role in cellular communication and have become key drug targets. To overcome the difficulties of growing …

    https://www.bioxfel.org/resources/647

  30. Crystallization of the Large Membrane Protein Complex Photosystem I in a Microfluidic Channel

    09 Oct 2015 | Teaching Materials

    Traditional macroscale protein crystallization is accomplished nontrivially by exploring a range of protein concentrations and buffers in solution until a suitable combination is attained. This …

    https://www.bioxfel.org/resources/646

  31. 3D Single Particle Structure Recovery

    07 Oct 2015 | Teaching Materials | Contributor(s): Ahmad Hosseinizadeh

    Dr. Ahmad Hosseinizadeh discuss different pathways to recovering the structure of single particles from XFEL snapshots.

    https://www.bioxfel.org/resources/645

  32. Energy Landscapes

    07 Oct 2015 | Teaching Materials | Contributor(s): Ali Dashti

    Energy landscapes and continuous conformational mapping of molecular machines.

    https://www.bioxfel.org/resources/644

  33. Manifold Embedding

    07 Oct 2015 | Teaching Materials | Contributor(s): Peter Schwander

    From single particle snapshots to movies of molecular machines and energy landscapes.

    https://www.bioxfel.org/resources/643

  34. Angular Momentum Decomposition

    07 Oct 2015 | Teaching Materials | Contributor(s): Dilano Saldin

    Dr. Dilano Saldin discusses using angular momentum decomposition in the analysis of single and multi-particle imaging with XFELs.

    https://www.bioxfel.org/resources/642