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Title: Current Status of Single Particle Imaging with X-ray Lasers

Abstract

The advent of ultrafast X-ray free-electron lasers (XFELs) opens the tantalizing possibility of the atomic-resolution imaging of reproducible objects such as viruses, nanoparticles, single molecules, clusters, and perhaps biological cells, achieving a resolution for single particle imaging better than a few tens of nanometers. Improving upon this is a significant challenge which has been the focus of a global single particle imaging (SPI) initiative launched in December 2014 at the Linac Coherent Light Source (LCLS), SLAC National Accelerator Laboratory, USA. A roadmap was outlined, and significant multi-disciplinary effort has since been devoted to work on the technical challenges of SPI such as radiation damage, beam characterization, beamline instrumentation and optics, sample preparation and delivery and algorithm development at multiple institutions involved in the SPI initiative. Currently, the SPI initiative has achieved 3D imaging of rice dwarf virus (RDV) and coliphage PR772 viruses at ~10 nm resolution by using soft X-ray FEL pulses at the Atomic Molecular and Optical (AMO) instrument of LCLS. Meanwhile, diffraction patterns with signal above noise up to the corner of the detector with a resolution of ~6 Ångström (Å) were also recorded with hard X-rays at the Coherent X-ray Imaging (CXI) instrument, also at LCLS. Achievingmore » atomic resolution is truly a grand challenge and there is still a long way to go in light of recent developments in electron microscopy. However, the potential for studying dynamics at physiological conditions and capturing ultrafast biological, chemical and physical processes represents a tremendous potential application, attracting continued interest in pursuing further method development. In this paper, we give a brief introduction of SPI developments and look ahead to further method development.« less

Authors:
 [1];  [2];  [3];  [2]
  1. Shandong Univ., Jinan (China). State Key Lab. of Crystal Materials; SLAC National Accelerator Lab., Menlo Park, CA (United States). Linac Coherent Light Source; ShanghaiTech Univ. (China). School of Physical Science and Technology
  2. ShanghaiTech Univ. (China). School of Physical Science and Technology
  3. SLAC National Accelerator Lab., Menlo Park, CA (United States). Linac Coherent Light Source; Stanford Univ., CA (United States). Dept. of Physics
Publication Date:
Research Org.:
SLAC National Accelerator Lab., Menlo Park, CA (United States); ShanghaiTech Univ. (China); Shandong Univ., Jinan (China)
Sponsoring Org.:
USDOE Office of Science (SC), Basic Energy Sciences (BES) (SC-22); National Natural Science Foundation of China (NNSFC); Major State Basic Research Development Program of China; China Scholarship Council
OSTI Identifier:
1425395
Grant/Contract Number:  
AC02-76SF00515; 31430031; 2014CB910401
Resource Type:
Accepted Manuscript
Journal Name:
Applied Sciences
Additional Journal Information:
Journal Volume: 8; Journal Issue: 1; Journal ID: ISSN 2076-3417
Publisher:
MDPI
Country of Publication:
United States
Language:
English
Subject:
36 MATERIALS SCIENCE; 47 OTHER INSTRUMENTATION; x-ray free-electron lasers; XFEL; coherent diffraction imaging; single particle imaging; resolution

Citation Formats

Sun, Zhibin, Fan, Jiadong, Li, Haoyuan, and Jiang, Huaidong. Current Status of Single Particle Imaging with X-ray Lasers. United States: N. p., 2018. Web. doi:10.3390/app8010132.
Sun, Zhibin, Fan, Jiadong, Li, Haoyuan, & Jiang, Huaidong. Current Status of Single Particle Imaging with X-ray Lasers. United States. doi:10.3390/app8010132.
Sun, Zhibin, Fan, Jiadong, Li, Haoyuan, and Jiang, Huaidong. Mon . "Current Status of Single Particle Imaging with X-ray Lasers". United States. doi:10.3390/app8010132. https://www.osti.gov/servlets/purl/1425395.
@article{osti_1425395,
title = {Current Status of Single Particle Imaging with X-ray Lasers},
author = {Sun, Zhibin and Fan, Jiadong and Li, Haoyuan and Jiang, Huaidong},
abstractNote = {The advent of ultrafast X-ray free-electron lasers (XFELs) opens the tantalizing possibility of the atomic-resolution imaging of reproducible objects such as viruses, nanoparticles, single molecules, clusters, and perhaps biological cells, achieving a resolution for single particle imaging better than a few tens of nanometers. Improving upon this is a significant challenge which has been the focus of a global single particle imaging (SPI) initiative launched in December 2014 at the Linac Coherent Light Source (LCLS), SLAC National Accelerator Laboratory, USA. A roadmap was outlined, and significant multi-disciplinary effort has since been devoted to work on the technical challenges of SPI such as radiation damage, beam characterization, beamline instrumentation and optics, sample preparation and delivery and algorithm development at multiple institutions involved in the SPI initiative. Currently, the SPI initiative has achieved 3D imaging of rice dwarf virus (RDV) and coliphage PR772 viruses at ~10 nm resolution by using soft X-ray FEL pulses at the Atomic Molecular and Optical (AMO) instrument of LCLS. Meanwhile, diffraction patterns with signal above noise up to the corner of the detector with a resolution of ~6 Ångström (Å) were also recorded with hard X-rays at the Coherent X-ray Imaging (CXI) instrument, also at LCLS. Achieving atomic resolution is truly a grand challenge and there is still a long way to go in light of recent developments in electron microscopy. However, the potential for studying dynamics at physiological conditions and capturing ultrafast biological, chemical and physical processes represents a tremendous potential application, attracting continued interest in pursuing further method development. In this paper, we give a brief introduction of SPI developments and look ahead to further method development.},
doi = {10.3390/app8010132},
journal = {Applied Sciences},
number = 1,
volume = 8,
place = {United States},
year = {2018},
month = {1}
}

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Works referenced in this record:

Single mimivirus particles intercepted and imaged with an X-ray laser
journal, February 2011

  • Seibert, M. Marvin; Ekeberg, Tomas; Maia, Filipe R. N. C.
  • Nature, Vol. 470, Issue 7332
  • DOI: 10.1038/nature09748

Independent labs to verify high-profile papers
journal, August 2012


Imaging whole Escherichia coli bacteria by using single-particle x-ray diffraction
journal, December 2002

  • Miao, J.; Hodgson, K. O.; Ishikawa, T.
  • Proceedings of the National Academy of Sciences, Vol. 100, Issue 1
  • DOI: 10.1073/pnas.232691299

Three-Dimensional Imaging of Microstructure in Au Nanocrystals
journal, April 2003


High-resolution x-ray diffraction microscopy of specifically labeled yeast cells
journal, April 2010

  • Nelson, J.; Huang, X.; Steinbrener, J.
  • Proceedings of the National Academy of Sciences, Vol. 107, Issue 16
  • DOI: 10.1073/pnas.0910874107

The Atomic Structure of Rice dwarf Virus Reveals the Self-Assembly Mechanism of Component Proteins
journal, October 2003


Spectromicroscopy and coherent diffraction imaging: focus on energy materials applications
journal, August 2014


Coherent imaging at the diffraction limit
journal, August 2014

  • Thibault, Pierre; Guizar-Sicairos, Manuel; Menzel, Andreas
  • Journal of Synchrotron Radiation, Vol. 21, Issue 5
  • DOI: 10.1107/S1600577514015343

Femtosecond X-ray protein nanocrystallography
journal, February 2011

  • Chapman, Henry N.; Fromme, Petra; Barty, Anton
  • Nature, Vol. 470, Issue 7332, p. 73-77
  • DOI: 10.1038/nature09750

Lensless imaging using broadband X-ray sources
journal, June 2011


Unique Phase Recovery for Nonperiodic Objects
journal, November 2003


High-Resolution Scanning X-ray Diffraction Microscopy
journal, July 2008


Phase retrieval of diffraction patterns from noncrystalline samples using the oversampling method
journal, May 2003


Three-dimensional mapping of a deformation field inside a nanocrystal
journal, July 2006

  • Pfeifer, Mark A.; Williams, Garth J.; Vartanyants, Ivan A.
  • Nature, Vol. 442, Issue 7098
  • DOI: 10.1038/nature04867

Sub-diffraction-limit imaging by stochastic optical reconstruction microscopy (STORM)
journal, August 2006

  • Rust, Michael J.; Bates, Mark; Zhuang, Xiaowei
  • Nature Methods, Vol. 3, Issue 10
  • DOI: 10.1038/nmeth929

Relaxed averaged alternating reflections for diffraction imaging
journal, November 2004


Coherent diffraction of single Rice Dwarf virus particles using hard X-rays at the Linac Coherent Light Source
journal, August 2016

  • Munke, Anna; Andreasson, Jakob; Aquila, Andrew
  • Scientific Data, Vol. 3, Issue 1
  • DOI: 10.1038/sdata.2016.64

Correlations in Scattered X-Ray Laser Pulses Reveal Nanoscale Structural Features of Viruses
journal, October 2017

  • Kurta, Ruslan P.; Donatelli, Jeffrey J.; Yoon, Chun Hong
  • Physical Review Letters, Vol. 119, Issue 15, Article No. 158102
  • DOI: 10.1103/PhysRevLett.119.158102

A data set from flash X-ray imaging of carboxysomes
journal, August 2016

  • Hantke, Max F.; Hasse, Dirk; Ekeberg, Tomas
  • Scientific Data, Vol. 3, Issue 1
  • DOI: 10.1038/sdata.2016.61

Conformational landscape of a virus by single-particle X-ray scattering
journal, August 2017

  • Hosseinizadeh, Ahmad; Mashayekhi, Ghoncheh; Copperman, Jeremy
  • Nature Methods, Vol. 14, Issue 9
  • DOI: 10.1038/nmeth.4395

Imaging Fully Hydrated Whole Cells by Coherent X-Ray Diffraction Microscopy
journal, February 2013


Three-dimensional coherent X-ray surface scattering imaging near total external reflection
journal, August 2012


Radiation damage in biological material: Electronic properties and electron impact ionization in urea
journal, October 2009


Single-shot diffraction data from the Mimivirus particle using an X-ray free-electron laser
journal, August 2016

  • Ekeberg, Tomas; Svenda, Martin; Seibert, M. Marvin
  • Scientific Data, Vol. 3, Issue 1
  • DOI: 10.1038/sdata.2016.60

Invited Article: A unified evaluation of iterative projection algorithms for phase retrieval
journal, January 2007

  • Marchesini, S.
  • Review of Scientific Instruments, Vol. 78, Issue 1
  • DOI: 10.1063/1.2403783

Development, characterization and experimental performance of x-ray optics for the LCLS free-electron laser
conference, August 2008

  • Soufli, Regina; Pivovaroff, Michael J.; Baker, Sherry L.
  • Optical Engineering + Applications, SPIE Proceedings
  • DOI: 10.1117/12.796876

Automated identification and classification of single particle serial femtosecond X-ray diffraction data
journal, January 2014

  • Andreasson, Jakob; Martin, Andrew V.; Liang, Meng
  • Optics Express, Vol. 22, Issue 3
  • DOI: 10.1364/OE.22.002497

Structure from fleeting illumination of faint spinning objects in flight
journal, November 2008

  • Fung, Russell; Shneerson, Valentin; Saldin, Dilano K.
  • Nature Physics, Vol. 5, Issue 1
  • DOI: 10.1038/nphys1129

Single-Particle Cryo-EM at Crystallographic Resolution
journal, April 2015


Macromolecular structures probed by combining single-shot free-electron laser diffraction with synchrotron coherent X-ray imaging
journal, May 2014

  • Gallagher-Jones, Marcus; Bessho, Yoshitaka; Kim, Sunam
  • Nature Communications, Vol. 5, Issue 1
  • DOI: 10.1038/ncomms4798

Scanning tunneling microscopy
journal, March 1983


The case for open computer programs
journal, February 2012

  • Ince, Darrel C.; Hatton, Leslie; Graham-Cumming, John
  • Nature, Vol. 482, Issue 7386
  • DOI: 10.1038/nature10836

Diffraction-limited storage rings – a window to the science of tomorrow
journal, August 2014

  • Eriksson, Mikael; van der Veen, J. Friso; Quitmann, Christoph
  • Journal of Synchrotron Radiation, Vol. 21, Issue 5
  • DOI: 10.1107/S1600577514019286

Properties of R Plasmid R772 and the Corresponding Pilus-specific Phage PR772
journal, February 1979


Hummingbird : monitoring and analyzing flash X-ray imaging experiments in real time
journal, April 2016

  • Daurer, Benedikt J.; Hantke, Max F.; Nettelblad, Carl
  • Journal of Applied Crystallography, Vol. 49, Issue 3
  • DOI: 10.1107/S1600576716005926

Combined EM/X-Ray Imaging Yields a Quasi-Atomic Model of the Adenovirus-Related Bacteriophage PRD1 and Shows Key Capsid and Membrane Interactions
journal, October 2001


A single-shot intensity-position monitor for hard x-ray FEL sources
conference, September 2011

  • Feng, Yiping; Feldkamp, Jan M.; Fritz, David M.
  • SPIE Optical Engineering + Applications, SPIE Proceedings
  • DOI: 10.1117/12.893740

Three-Dimensional Reconstruction of the Giant Mimivirus Particle with an X-Ray Free-Electron Laser
journal, March 2015


Single-particle structure determination by correlations of snapshot X-ray diffraction patterns
journal, January 2012

  • Starodub, D.; Aquila, A.; Bajt, S.
  • Nature Communications, Vol. 3, Issue 1
  • DOI: 10.1038/ncomms2288

High-resolution three-dimensional partially coherent diffraction imaging
journal, January 2012

  • Clark, J. N.; Huang, X.; Harder, R.
  • Nature Communications, Vol. 3, Issue 1
  • DOI: 10.1038/ncomms1994

Femtosecond electronic response of atoms to ultra-intense X-rays
journal, July 2010


Good data are not enough
journal, November 2016


Quantitative Imaging of Single Unstained Magnetotactic Bacteria by Coherent X-ray Diffraction Microscopy
journal, May 2015


The Atomic, Molecular and Optical Science instrument at the Linac Coherent Light Source
journal, April 2015

  • Ferguson, Ken R.; Bucher, Maximilian; Bozek, John D.
  • Journal of Synchrotron Radiation, Vol. 22, Issue 3
  • DOI: 10.1107/S1600577515004646

AGIPD, a high dynamic range fast detector for the European XFEL
journal, January 2015


Tabletop nanometer extreme ultraviolet imaging in an extended reflection mode using coherent Fresnel ptychography
journal, January 2014


High-resolution X-ray imaging of Plasmodium falciparum -infected red blood cells
journal, October 2008

  • Williams, Garth J.; Hanssen, Eric; Peele, Andrew G.
  • Cytometry Part A, Vol. 73A, Issue 10
  • DOI: 10.1002/cyto.a.20616

Three-dimensional X-ray structural microscopy with submicrometre resolution
journal, February 2002

  • Larson, B. C.; Yang, Wenge; Ice, G. E.
  • Nature, Vol. 415, p. 887-890
  • DOI: 10.1038/415887a

Reconstruction of an object from the modulus of its Fourier transform
journal, January 1978


Reproducibility
journal, January 2014


Hybrid projection–reflection method for phase retrieval
journal, January 2003

  • Bauschke, Heinz H.; Combettes, Patrick L.; Luke, D. Russell
  • Journal of the Optical Society of America A, Vol. 20, Issue 6
  • DOI: 10.1364/JOSAA.20.001025

Iterative phasing for fluctuation X-ray scattering
journal, August 2015

  • Donatelli, Jeffrey J.; Zwart, Peter H.; Sethian, James A.
  • Proceedings of the National Academy of Sciences, Vol. 112, Issue 33
  • DOI: 10.1073/pnas.1513738112

The linac coherent light source single particle imaging road map
journal, July 2015

  • Aquila, A.; Barty, A.; Bostedt, C.
  • Structural Dynamics, Vol. 2, Issue 4
  • DOI: 10.1063/1.4918726

Some implications of a theorem due to Shannon
journal, November 1952


Coherent Diffraction Imaging Analysis of Shape-Controlled Nanoparticles with Focused Hard X-ray Free-Electron Laser Pulses
journal, November 2013

  • Takahashi, Yukio; Suzuki, Akihiro; Zettsu, Nobuyuki
  • Nano Letters, Vol. 13, Issue 12
  • DOI: 10.1021/nl403247x

Gas dynamic virtual nozzle for generation of microscopic droplet streams
journal, September 2008

  • DePonte, D. P.; Weierstall, U.; Schmidt, K.
  • Journal of Physics D: Applied Physics, Vol. 41, Issue 19, Article No. 195505
  • DOI: 10.1088/0022-3727/41/19/195505

Nanoflow electrospinning serial femtosecond crystallography
journal, October 2012

  • Sierra, Raymond G.; Laksmono, Hartawan; Kern, Jan
  • Acta Crystallographica Section D Biological Crystallography, Vol. 68, Issue 11, p. 1584-1587
  • DOI: 10.1107/S0907444912038152

Single-shot three-dimensional structure determination of nanocrystals with femtosecond X-ray free-electron laser pulses
journal, June 2014

  • Xu, Rui; Jiang, Huaidong; Song, Changyong
  • Nature Communications, Vol. 5, Issue 1
  • DOI: 10.1038/ncomms5061

Stimulated Emission of Bremsstrahlung in a Periodic Magnetic Field
journal, April 1971

  • Madey, John M. J.
  • Journal of Applied Physics, Vol. 42, Issue 5
  • DOI: 10.1063/1.1660466

Three-Dimensional Visualization of a Human Chromosome Using Coherent X-Ray Diffraction
journal, January 2009


Imaging Intracellular Fluorescent Proteins at Nanometer Resolution
journal, September 2006


Fractal morphology, imaging and mass spectrometry of single aerosol particles in flight
journal, June 2012

  • Loh, N. D.; Hampton, C. Y.; Martin, A. V.
  • Nature, Vol. 486, Issue 7404
  • DOI: 10.1038/nature11222

Breaking the 10 nm barrier in hard-X-ray focusing
journal, November 2009

  • Mimura, Hidekazu; Handa, Soichiro; Kimura, Takashi
  • Nature Physics, Vol. 6, Issue 2
  • DOI: 10.1038/nphys1457

Imaging single cells in a beam of live cyanobacteria with an X-ray laser
journal, February 2015

  • van der Schot, Gijs; Svenda, Martin; Maia, Filipe R. N. C.
  • Nature Communications, Vol. 6, Issue 1
  • DOI: 10.1038/ncomms6704

Three-dimensional positioning and structure of chromosomes in a human prophase nucleus
journal, July 2017


Sacrificial Tamper Slows Down Sample Explosion in FLASH Diffraction Experiments
journal, February 2010


Cryogenic Electron Microscopy and Single-Particle Analysis
journal, June 2015


A comprehensive simulation framework for imaging single particles and biomolecules at the European X-ray Free-Electron Laser
journal, April 2016

  • Yoon, Chun Hong; Yurkov, Mikhail V.; Schneidmiller, Evgeny A.
  • Scientific Reports, Vol. 6, Issue 1
  • DOI: 10.1038/srep24791

Imaging transient melting of a nanocrystal using an X-ray laser
journal, June 2015

  • Clark, Jesse N.; Beitra, Loren; Xiong, Gang
  • Proceedings of the National Academy of Sciences, Vol. 112, Issue 24
  • DOI: 10.1073/pnas.1417678112

Modelling dynamics of samples exposed to free-electron-laser radiation with Boltzmann equations
journal, November 2006


Keyhole coherent diffractive imaging
journal, March 2008

  • Abbey, Brian; Nugent, Keith A.; Williams, Garth J.
  • Nature Physics, Vol. 4, Issue 5
  • DOI: 10.1038/nphys896

Cryo-scanning x-ray diffraction microscopy of frozen-hydrated yeast: CRYO-SCANNING X-RAY DIFFRACTION MICROSCOPY
journal, December 2012


Cryptotomography: Reconstructing 3D Fourier Intensities from Randomly Oriented Single-Shot Diffraction Patterns
journal, June 2010


New challenges in beamline instrumentation for the ESRF Upgrade Programme Phase II
journal, August 2014

  • Susini, Jean; Barrett, Raymond; Chavanne, Joel
  • Journal of Synchrotron Radiation, Vol. 21, Issue 5
  • DOI: 10.1107/S1600577514015951

Nanoscale Imaging of Mineral Crystals inside Biological Composite Materials Using X-Ray Diffraction Microscopy
journal, January 2008


Coherent soft X-ray diffraction imaging of coliphage PR772 at the Linac coherent light source
journal, June 2017

  • Reddy, Hemanth K. N.; Yoon, Chun Hong; Aquila, Andrew
  • Scientific Data, Vol. 4, Issue 1
  • DOI: 10.1038/sdata.2017.79

Ultrafast single-shot diffraction imaging of nanoscale dynamics
journal, June 2008


Self-terminating diffraction gates femtosecond X-ray nanocrystallography measurements
journal, December 2011


Fresnel Coherent Diffractive Imaging
journal, July 2006


High-throughput imaging of heterogeneous cell organelles with an X-ray laser
journal, November 2014


Experimental strategies for imaging bioparticles with femtosecond hard X-ray pulses
journal, April 2017


Lensless X-ray imaging in reflection geometry
journal, February 2011


Single Particle X-ray Diffractive Imaging
journal, January 2008

  • Bogan, Michael J.; Benner, W. Henry; Boutet, Sébastien
  • Nano Letters, Vol. 8, Issue 1, p. 310-316
  • DOI: 10.1021/nl072728k

Data systems for the Linac Coherent Light Source
journal, July 2016


First lasing and operation of an ångstrom-wavelength free-electron laser
journal, August 2010


Single-pulse enhanced coherent diffraction imaging of bacteria with an X-ray free-electron laser
journal, September 2016

  • Fan, Jiadong; Sun, Zhibin; Wang, Yaling
  • Scientific Reports, Vol. 6, Issue 1
  • DOI: 10.1038/srep34008

Quantitative Imaging of Single, Unstained Viruses with Coherent X Rays
journal, October 2008


The Sirius project
journal, August 2014

  • Liu, Lin; Milas, Natalia; Mukai, Afonso H. C.
  • Journal of Synchrotron Radiation, Vol. 21, Issue 5
  • DOI: 10.1107/S1600577514011928

Auger-electron cascades in diamond and amorphous carbon
journal, November 2001


Application of optimization technique to noncrystalline x-ray diffraction microscopy: Guided hybrid input-output method
journal, August 2007


DNA Staining for Fluorescence and Laser Confocal Microscopy
journal, January 1997

  • Suzuki, Takeshi; Fujikura, Keiko; Higashiyama, Tetsuya
  • Journal of Histochemistry & Cytochemistry, Vol. 45, Issue 1
  • DOI: 10.1177/002215549704500107

Nanoscale Imaging of Buried Structures with Elemental Specificity Using Resonant X-Ray Diffraction Microscopy
journal, January 2008


Coherent X-Ray Diffraction Imaging
journal, January 2012

  • Miao, Jianwei; Sandberg, Richard L.; Song, Changyong
  • IEEE Journal of Selected Topics in Quantum Electronics, Vol. 18, Issue 1
  • DOI: 10.1109/JSTQE.2011.2157306

Ultrafast Three-Dimensional Imaging of Lattice Dynamics in Individual Gold Nanocrystals
journal, May 2013


Reconstructing an icosahedral virus from single-particle diffraction experiments
journal, January 2011

  • Saldin, D. K.; Poon, H. -C.; Schwander, P.
  • Optics Express, Vol. 19, Issue 18
  • DOI: 10.1364/OE.19.017318

Soft X-ray microscopy at a spatial resolution better than 15 nm
journal, June 2005

  • Chao, Weilun; Harteneck, Bruce D.; Liddle, J. Alexander
  • Nature, Vol. 435, Issue 7046
  • DOI: 10.1038/nature03719

Sub-5 nm hard x-ray point focusing by a combined Kirkpatrick-Baez mirror and multilayer zone plate
journal, January 2013

  • Döring, F.; Robisch, A. L.; Eberl, C.
  • Optics Express, Vol. 21, Issue 16
  • DOI: 10.1364/OE.21.019311

Future of ePix detectors for high repetition rate FELs
conference, January 2016

  • Blaj, G.; Caragiulo, P.; Carini, G.
  • PROCEEDINGS OF THE 12TH INTERNATIONAL CONFERENCE ON SYNCHROTRON RADIATION INSTRUMENTATION – SRI2015, AIP Conference Proceedings
  • DOI: 10.1063/1.4952884

Coherent X-ray scattering and lensless imaging at the European XFEL Facility
journal, October 2007

  • Vartanyants, I. A.; Robinson, I. K.; McNulty, I.
  • Journal of Synchrotron Radiation, Vol. 14, Issue 6
  • DOI: 10.1107/S0909049507037600

Solution of the crystallographic phase problem by iterated projections
journal, April 2003

  • Elser, Veit
  • Acta Crystallographica Section A Foundations of Crystallography, Vol. 59, Issue 3
  • DOI: 10.1107/S0108767303002812

The soft x-ray free-electron laser FLASH at DESY: beamlines, diagnostics and end-stations
journal, February 2009


The Coherent X-ray Imaging (CXI) instrument at the Linac Coherent Light Source (LCLS)
journal, March 2010


Femtosecond diffractive imaging of biological cells
journal, September 2010

  • Marvin Seibert, M.; Boutet, Sébastien; Svenda, Martin
  • Journal of Physics B: Atomic, Molecular and Optical Physics, Vol. 43, Issue 19
  • DOI: 10.1088/0953-4075/43/19/194015

Bayesian algorithms for recovering structure from single-particle diffraction snapshots of unknown orientation: a comparison
journal, July 2011

  • Moths, Brian; Ourmazd, Abbas
  • Acta Crystallographica Section A Foundations of Crystallography, Vol. 67, Issue 5
  • DOI: 10.1107/S0108767311019611

Extending the methodology of X-ray crystallography to allow imaging of micrometre-sized non-crystalline specimens
journal, July 1999

  • Miao, Jianwei; Charalambous, Pambos; Kirz, Janos
  • Nature, Vol. 400, Issue 6742
  • DOI: 10.1038/22498

An approach to three-dimensional structures of biomolecules by using single-molecule diffraction images
journal, June 2001

  • Miao, J.; Hodgson, K. O.; Sayre, D.
  • Proceedings of the National Academy of Sciences, Vol. 98, Issue 12
  • DOI: 10.1073/pnas.111083998

Diffusion maps
journal, July 2006

  • Coifman, Ronald R.; Lafon, Stéphane
  • Applied and Computational Harmonic Analysis, Vol. 21, Issue 1
  • DOI: 10.1016/j.acha.2006.04.006

Molecular Microscopy: Fundamental Limitations
journal, December 1970


Beyond crystallography: Diffractive imaging using coherent x-ray light sources
journal, April 2015


Unravelling biological macromolecules with cryo-electron microscopy
journal, September 2016

  • Fernandez-Leiro, Rafael; Scheres, Sjors H. W.
  • Nature, Vol. 537, Issue 7620
  • DOI: 10.1038/nature19948

The Coherent X-ray Imaging Data Bank
journal, August 2012


High-resolution ab initio three-dimensional x-ray diffraction microscopy
journal, January 2006

  • Chapman, Henry N.; Barty, Anton; Marchesini, Stefano
  • Journal of the Optical Society of America A, Vol. 23, Issue 5
  • DOI: 10.1364/JOSAA.23.001179

Cryogenic X-Ray Diffraction Microscopy for Biological Samples
journal, November 2009


Soft X-Ray Diffraction Microscopy of a Frozen Hydrated Yeast Cell
journal, November 2009


Structure, Dynamics, Assembly, and Evolution of Protein Complexes
journal, June 2015


Coherent diffraction surface imaging in reflection geometry
journal, January 2010

  • Marathe, Shashidhara; Kim, S. S.; Kim, S. N.
  • Optics Express, Vol. 18, Issue 7
  • DOI: 10.1364/OE.18.007253

Diffractive imaging of highly focused X-ray fields
journal, January 2006

  • Quiney, H. M.; Peele, A. G.; Cai, Z.
  • Nature Physics, Vol. 2, Issue 2
  • DOI: 10.1038/nphys218

Soft x-ray mirrors for the Linac Coherent Light Source
conference, September 2007

  • Pivovaroff, M. J.; Bionta, R. M.; Mccarville, T. J.
  • Optical Engineering + Applications, SPIE Proceedings
  • DOI: 10.1117/12.740314

Three-dimensional structure determination from a single view
journal, December 2009

  • Raines, Kevin S.; Salha, Sara; Sandberg, Richard L.
  • Nature, Vol. 463, Issue 7278
  • DOI: 10.1038/nature08705

The Coherent X-ray Imaging instrument at the Linac Coherent Light Source
journal, April 2015

  • Liang, Mengning; Williams, Garth J.; Messerschmidt, Marc
  • Journal of Synchrotron Radiation, Vol. 22, Issue 3
  • DOI: 10.1107/S160057751500449X

Nanoscale X-ray imaging
journal, December 2010


Reconstruction of the Shapes of Gold Nanocrystals Using Coherent X-Ray Diffraction
journal, October 2001


Femtosecond diffractive imaging with a soft-X-ray free-electron laser
journal, November 2006

  • Chapman, Henry N.; Barty, Anton; Bogan, Michael J.
  • Nature Physics, Vol. 2, Issue 12
  • DOI: 10.1038/nphys461

Quantitative biological imaging by ptychographic x-ray diffraction microscopy
journal, December 2009

  • Giewekemeyer, K.; Thibault, P.; Kalbfleisch, S.
  • Proceedings of the National Academy of Sciences, Vol. 107, Issue 2
  • DOI: 10.1073/pnas.0905846107

STED microscopy reveals that synaptotagmin remains clustered after synaptic vesicle exocytosis
journal, April 2006

  • Willig, Katrin I.; Rizzoli, Silvio O.; Westphal, Volker
  • Nature, Vol. 440, Issue 7086
  • DOI: 10.1038/nature04592

Coherent X-Ray Diffraction Imaging of Chloroplasts from Cyanidioschyzon merolae by Using X-Ray Free Electron Laser
journal, March 2015

  • Takayama, Yuki; Inui, Yayoi; Sekiguchi, Yuki
  • Plant and Cell Physiology, Vol. 56, Issue 7
  • DOI: 10.1093/pcp/pcv032

Second and third harmonic measurements at the linac coherent light source
journal, June 2011

  • Ratner, D.; Brachmann, A.; Decker, F. J.
  • Physical Review Special Topics - Accelerators and Beams, Vol. 14, Issue 6
  • DOI: 10.1103/PhysRevSTAB.14.060701

X-ray image reconstruction from a diffraction pattern alone
journal, October 2003


Multistep Ionization of Argon Clusters in Intense Femtosecond Extreme Ultraviolet Pulses
journal, April 2008


Start-to-end simulation of single-particle imaging using ultra-short pulses at the European X-ray Free-Electron Laser
journal, September 2017


Coherent imaging of biological samples with femtosecond pulses at the free-electron laser FLASH
journal, March 2010


A minor outer capsid protein, P9, of Rice dwarf virus
journal, November 2003


Condor : a simulation tool for flash X-ray imaging
journal, July 2016

  • Hantke, Max F.; Ekeberg, Tomas; Maia, Filipe R. N. C.
  • Journal of Applied Crystallography, Vol. 49, Issue 4
  • DOI: 10.1107/S1600576716009213

Femtosecond free-electron laser x-ray diffraction data sets for algorithm development
journal, January 2012

  • Kassemeyer, Stephan; Steinbrener, Jan; Lomb, Lukas
  • Optics Express, Vol. 20, Issue 4
  • DOI: 10.1364/OE.20.004149

An assessment of the resolution limitation due to radiation-damage in X-ray diffraction microscopy
journal, March 2009

  • Howells, M. R.; Beetz, T.; Chapman, H. N.
  • Journal of Electron Spectroscopy and Related Phenomena, Vol. 170, Issue 1-3
  • DOI: 10.1016/j.elspec.2008.10.008

Atomic Force Microscope
journal, March 1986


Analytic 3D Imaging of Mammalian Nucleus at Nanoscale Using Coherent X-Rays and Optical Fluorescence Microscopy
journal, September 2014


Highly coherent and stable pulses from the FERMI seeded free-electron laser in the extreme ultraviolet
journal, September 2012


Towards hybrid pixel detectors for energy-dispersive or soft X-ray photon science
journal, February 2016

  • Jungmann-Smith, J. H.; Bergamaschi, A.; Brückner, M.
  • Journal of Synchrotron Radiation, Vol. 23, Issue 2
  • DOI: 10.1107/S1600577515023541

Coherent lensless X-ray imaging
journal, November 2010


The symmetries of image formation by scattering II Applications
journal, January 2012

  • Schwander, Peter; Giannakis, Dimitrios; Yoon, Chun Hong
  • Optics Express, Vol. 20, Issue 12
  • DOI: 10.1364/OE.20.012827

Atomic structure of a single large biomolecule from diffraction patterns of random orientations
journal, July 2012


Nanofocusing of hard X-ray free electron laser pulses using diamond based Fresnel zone plates
journal, August 2011

  • David, C.; Gorelick, S.; Rutishauser, S.
  • Scientific Reports, Vol. 1, Issue 1
  • DOI: 10.1038/srep00057

The effect of electron transport on the characterization of x-ray free-electron laser pulses via ablation
journal, October 2017

  • Hau-Riege, Stefan P.; Pardini, Tom
  • Applied Physics Letters, Vol. 111, Issue 14
  • DOI: 10.1063/1.4996190

Imaging live cell in micro-liquid enclosure by X-ray laser diffraction
journal, January 2014

  • Kimura, Takashi; Joti, Yasumasa; Shibuya, Akemi
  • Nature Communications, Vol. 5, Issue 1
  • DOI: 10.1038/ncomms4052

Development of an X-ray pixel detector with multi-port charge-coupled device for X-ray free-electron laser experiments
journal, March 2014

  • Kameshima, Takashi; Ono, Shun; Kudo, Togo
  • Review of Scientific Instruments, Vol. 85, Issue 3
  • DOI: 10.1063/1.4867668

X-ray free-electron lasers
journal, November 2010


Coherent X-ray diffraction imaging of strain at the nanoscale
journal, April 2009

  • Robinson, Ian; Harder, Ross
  • Nature Materials, Vol. 8, Issue 4
  • DOI: 10.1038/nmat2400

Simple convergent-nozzle aerosol injector for single-particle diffractive imaging with X-ray free-electron lasers
journal, June 2015

  • Kirian, R. A.; Awel, S.; Eckerskorn, N.
  • Structural Dynamics, Vol. 2, Issue 4
  • DOI: 10.1063/1.4922648

Dose, exposure time and resolution in serial X-ray crystallography
journal, December 2007


Detector Development for the Linac Coherent Light Source
journal, July 2014


Three-Dimensional Coherent X-Ray Diffraction Imaging of Molten Iron in Mantle Olivine at Nanoscale Resolution
journal, May 2013


Dynamics of biological molecules irradiated by short x-ray pulses
journal, May 2004


The symmetries of image formation by scattering I Theoretical framework
journal, January 2012

  • Giannakis, Dimitrios; Schwander, Peter; Ourmazd, Abbas
  • Optics Express, Vol. 20, Issue 12
  • DOI: 10.1364/OE.20.012799

The MAX IV storage ring project
journal, August 2014

  • Tavares, Pedro F.; Leemann, Simon C.; Sjöström, Magnus
  • Journal of Synchrotron Radiation, Vol. 21, Issue 5
  • DOI: 10.1107/S1600577514011503

Linac Coherent Light Source data analysis using psana
journal, March 2016

  • Damiani, D.; Dubrovin, M.; Gaponenko, I.
  • Journal of Applied Crystallography, Vol. 49, Issue 2
  • DOI: 10.1107/S1600576716004349

In Vivo Confocal Scanning Laser Microscopy of Human Skin: Melanin Provides Strong Contrast
journal, June 1995

  • Rajadhyaksha, Milind; Grossman, Melanie; Esterowitz, Dina
  • Journal of Investigative Dermatology, Vol. 104, Issue 6
  • DOI: 10.1111/1523-1747.ep12606215

Post-sample aperture for low background diffraction experiments at X-ray free-electron lasers
journal, October 2017

  • Wiedorn, Max O.; Awel, Salah; Morgan, Andrew J.
  • Journal of Synchrotron Radiation, Vol. 24, Issue 6
  • DOI: 10.1107/S1600577517011961

Sparsity-based single-shot subwavelength coherent diffractive imaging
journal, April 2012

  • Szameit, A.; Shechtman, Y.; Osherovich, E.
  • Nature Materials, Vol. 11, Issue 5
  • DOI: 10.1038/nmat3289

X-ray detectors at the Linac Coherent Light Source
journal, April 2015

  • Blaj, Gabriel; Caragiulo, Pietro; Carini, Gabriella
  • Journal of Synchrotron Radiation, Vol. 22, Issue 3
  • DOI: 10.1107/S1600577515005317

Crystal structures of MS2 coat protein mutants in complex with wild- type RNA operator fragments
journal, March 1998


Potential for biomolecular imaging with femtosecond X-ray pulses
journal, August 2000

  • Neutze, Richard; Wouts, Remco; van der Spoel, David
  • Nature, Vol. 406, Issue 6797
  • DOI: 10.1038/35021099

Structure Determination of Membrane Proteins by Nuclear Magnetic Resonance Spectroscopy
journal, June 2013


DLSR design and plans: an international overview
journal, August 2014


Quantitative 3D imaging of whole, unstained cells by using X-ray diffraction microscopy
journal, June 2010

  • Jiang, H.; Song, C.; Chen, C. -C.
  • Proceedings of the National Academy of Sciences, Vol. 107, Issue 25
  • DOI: 10.1073/pnas.1000156107

Dichroic coherent diffractive imaging
journal, August 2011

  • Tripathi, A.; Mohanty, J.; Dietze, S. H.
  • Proceedings of the National Academy of Sciences, Vol. 108, Issue 33
  • DOI: 10.1073/pnas.1104304108

Predicting the coherent X-ray wavefront focal properties at the Linac Coherent Light Source (LCLS) X-ray free electron laser
journal, January 2009

  • Barty, Anton; Soufli, Regina; McCarville, Tom
  • Optics Express, Vol. 17, Issue 18
  • DOI: 10.1364/OE.17.015508

Biological imaging by soft x-ray diffraction microscopy
journal, October 2005

  • Shapiro, D.; Thibault, P.; Beetz, T.
  • Proceedings of the National Academy of Sciences, Vol. 102, Issue 43
  • DOI: 10.1073/pnas.0503305102

A compact X-ray free-electron laser emitting in the sub-ångström region
journal, June 2012


Phase retrieval from the magnitude of the Fourier transforms of nonperiodic objects
journal, January 1998

  • Miao, J.; Sayre, D.; Chapman, H. N.
  • Journal of the Optical Society of America A, Vol. 15, Issue 6
  • DOI: 10.1364/JOSAA.15.001662

Radiation damage to biological macromolecules: some answers and more questions
journal, December 2012


Aerosol Imaging with a Soft X-Ray Free Electron Laser
journal, February 2010

  • Bogan, Michael J.; Boutet, Sébastien; Chapman, Henry N.
  • Aerosol Science and Technology, Vol. 44, Issue 3
  • DOI: 10.1080/02786820903485800

NGL Viewer: a web application for molecular visualization
journal, April 2015

  • Rose, Alexander S.; Hildebrand, Peter W.
  • Nucleic Acids Research, Vol. 43, Issue W1
  • DOI: 10.1093/nar/gkv402

Three-dimensional coherent X-ray diffractive imaging of whole frozen-hydrated cells
journal, August 2015


Open data set of live cyanobacterial cells imaged using an X-ray laser
journal, August 2016

  • van der Schot, Gijs; Svenda, Martin; Maia, Filipe R. N. C.
  • Scientific Data, Vol. 3, Issue 1
  • DOI: 10.1038/sdata.2016.58

The Three-dimensional Structure of Genomic RNA in Bacteriophage MS2: Implications for Assembly
journal, January 2008

  • Toropova, Katerina; Basnak, Gabriella; Twarock, Reidun
  • Journal of Molecular Biology, Vol. 375, Issue 3
  • DOI: 10.1016/j.jmb.2007.08.067

Dragonfly : an implementation of the expand–maximize–compress algorithm for single-particle imaging
journal, June 2016

  • Ayyer, Kartik; Lan, Ti-Yen; Elser, Veit
  • Journal of Applied Crystallography, Vol. 49, Issue 4
  • DOI: 10.1107/S1600576716008165

Going deeper than microscopy: the optical imaging frontier in biology
journal, July 2010


Lensless coherent imaging by phase retrieval with an illumination pattern constraint
journal, January 2006


Coherent-Pulse 2D Crystallography Using a Free-Electron Laser X-Ray Source
journal, January 2009


Phase retrieval algorithms: a comparison
journal, January 1982


Seed-mediated growth of platinum nanoparticles on carbon nanotubes for the fabrication of electrochemical biosensors
journal, April 2008


Ptychographic X-ray computed tomography at the nanoscale
journal, September 2010

  • Dierolf, Martin; Menzel, Andreas; Thibault, Pierre
  • Nature, Vol. 467, Issue 7314
  • DOI: 10.1038/nature09419

Three-Dimensional GaN Ga 2 O 3 Core Shell Structure Revealed by X-Ray Diffraction Microscopy
journal, November 2006


Reproducibility: A tragedy of errors
journal, February 2016

  • Allison, David B.; Brown, Andrew W.; George, Brandon J.
  • Nature, Vol. 530, Issue 7588
  • DOI: 10.1038/530027a

Fluorescence microscopy with diffraction resolution barrier broken by stimulated emission
journal, July 2000

  • Klar, T. A.; Jakobs, S.; Dyba, M.
  • Proceedings of the National Academy of Sciences, Vol. 97, Issue 15
  • DOI: 10.1073/pnas.97.15.8206

Theories of scanning probe microscopes at the atomic scale
journal, October 2003

  • Hofer, Werner A.; Foster, Adam S.; Shluger, Alexander L.
  • Reviews of Modern Physics, Vol. 75, Issue 4
  • DOI: 10.1103/RevModPhys.75.1287

Hard-X-Ray Lensless Imaging of Extended Objects
journal, January 2007


Data sharing: An open mind on open data
journal, January 2016


High Resolution 3D X-Ray Diffraction Microscopy
journal, August 2002


Imaging Atomic Structure and Dynamics with Ultrafast X-ray Scattering
journal, June 2007


The AGIPD detector for the European XFEL
journal, January 2012


Large-format, high-speed, X-ray pnCCDs combined with electron and ion imaging spectrometers in a multipurpose chamber for experiments at 4th generation light sources
journal, March 2010

  • Strüder, Lothar; Epp, Sascha; Rolles, Daniel
  • Nuclear Instruments and Methods in Physics Research Section A: Accelerators, Spectrometers, Detectors and Associated Equipment, Vol. 614, Issue 3
  • DOI: 10.1016/j.nima.2009.12.053