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  • 1.
    Andreasson, Jakob
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Martin, Andrew V.
    Liang, Meng
    Timneanu, Nicusor
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Aquila, Andrew
    Wang, Fenglin
    Iwan, Bianca
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Svenda, Martin
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Ekeberg, Tomas
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Hantke, Max
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Bielecki, Johan
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Rolles, Daniel
    Rudenko, Artem
    Foucar, Lutz
    Hartmann, Robert
    Erk, Benjamin
    Rudek, Benedikt
    Chapman, Henry N.
    Hajdu, Janos
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Barty, Anton
    Automated identification and classification of single particle serial femtosecond X-ray diffraction data2014In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 22, no 3, p. 2497-2510Article in journal (Refereed)
    Abstract [en]

    The first hard X-ray laser, the Linac Coherent Light Source (LCLS), produces 120 shots per second. Particles injected into the X-ray beam are hit randomly and in unknown orientations by the extremely intense X-ray pulses, where the femtosecond-duration X-ray pulses diffract from the sample before the particle structure is significantly changed even though the sample is ultimately destroyed by the deposited X-ray energy. Single particle X-ray diffraction experiments generate data at the FEL repetition rate, resulting in more than 400,000 detector readouts in an hour, the data stream during an experiment contains blank frames mixed with hits on single particles, clusters and contaminants. The diffraction signal is generally weak and it is superimposed on a low but continually fluctuating background signal, originating from photon noise in the beam line and electronic noise from the detector. Meanwhile, explosion of the sample creates fragments with a characteristic signature. Here, we describe methods based on rapid image analysis combined with ion Time-of-Flight (ToF) spectroscopy of the fragments to achieve an efficient, automated and unsupervised sorting of diffraction data. The studies described here form a basis for the development of real-time frame rejection methods, e. g. for the European XFEL, which is expected to produce 100 million pulses per hour. (C)2014 Optical Society of America

  • 2. Aquila, Andrew
    et al.
    Hunter, Mark S.
    Doak, R. Bruce
    Kirian, Richard A.
    Fromme, Petra
    White, Thomas A.
    Andreasson, Jakob
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Arnlund, David
    Bajt, Saša
    Barends, Thomas R. M.
    Barthelmess, Miriam
    Bogan, Michael J.
    Bostedt, Christoph
    Bottin, Hervé
    Bozek, John D.
    Caleman, Carl
    Coppola, Nicola
    Davidsson, Jan
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - Ångström, Physical Chemistry.
    DePonte, Daniel P.
    Elser, Veit
    Epp, Sascha W.
    Erk, Benjamin
    Fleckenstein, Holger
    Foucar, Lutz
    Frank, Matthias
    Fromme, Raimund
    Graafsma, Heinz
    Grotjohann, Ingo
    Gumprecht, Lars
    Hajdu, Janos
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Hampton, Christina Y.
    Hartmann, Andreas
    Hartmann, Robert
    Hau-Riege, Stefan
    Hauser, Günter
    Hirsemann, Helmut
    Holl, Peter
    Holton, James M.
    Hömke, André
    Johansson, Linda
    Kimmel, Nils
    Kassemeyer, Stephan
    Krasniqi, Faton
    Kühnel, Kai-Uwe
    Liang, Mengning
    Lomb, Lukas
    Malmerberg, Erik
    Marchesini, Stefano
    Martin, Andrew V.
    Maia, Filipe R.N.C.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Messerschmidt, Marc
    Nass, Karol
    Reich, Christian
    Neutze, Richard
    Rolles, Daniel
    Rudek, Benedikt
    Rudenko, Artem
    Schlichting, Ilme
    Schmidt, Carlo
    Schmidt, Kevin E.
    Schulz, Joachim
    Seibert, M. Marvin
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Soltau, Heike
    Shoeman, Robert L.
    Sierra, Raymond
    Starodub, Dmitri
    Stellato, Francesco
    Stern, Stephan
    Strüder, Lothar
    Timneanu, Nicusor
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Ullrich, Joachim
    Wang, Xiaoyu
    Williams, Garth J.
    Weidenspointner, Georg
    Weierstall, Uwe
    Wunderer, Cornelia
    Barty, Anton
    Spence, John C. H.
    Chapman, Henry N.
    Time-resolved protein nanocrystallography using an X-ray free-electron laser2012In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 20, no 3, p. 2706-2716Article in journal (Refereed)
    Abstract [en]

    We demonstrate the use of an X-ray free electron laser synchronized with an optical pump laser to obtain X-ray diffraction snapshots from the photoactivated states of large membrane protein complexes in the form of nanocrystals flowing in a liquid jet. Light-induced changes of Photosystem I-Ferredoxin co-crystals were observed at time delays of 5 to 10 µs after excitation. The result correlates with the microsecond kinetics of electron transfer from Photosystem I to ferredoxin. The undocking process that follows the electron transfer leads to large rearrangements in the crystals that will terminally lead to the disintegration of the crystals. We describe the experimental setup and obtain the first time-resolved femtosecond serial X-ray crystallography results from an irreversible photo-chemical reaction at the Linac Coherent Light Source. This technique opens the door to time-resolved structural studies of reaction dynamics in biological systems.

  • 3.
    Caleman, Carl
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Physics, Department of Physics and Astronomy, Molecular and condensed matter physics.
    Timneanu, Nicusor
    Uppsala University, Disciplinary Domain of Science and Technology, Physics, Department of Physics and Astronomy, Molecular and condensed matter physics. Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Martin, Andrew V.
    Jönsson, H. Olof
    Uppsala University, Disciplinary Domain of Science and Technology, Physics, Department of Physics and Astronomy, Molecular and condensed matter physics.
    Aquila, Andrew
    Barty, Anton
    Scott, Howard A.
    White, Thomas A.
    Chapman, Henry N.
    Ultrafast self-gating Bragg diffraction of exploding nanocrystals in an X-ray laser2015In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 23, no 2, p. 1213-1231Article in journal (Refereed)
    Abstract [en]

    In structural determination of crystalline proteins using intense femtosecond X-ray lasers, damage processes lead to loss of structural coherence during the exposure. We use a nonthermal description for the damage dynamics to calculate the ultrafast ionization and the subsequent atomic displacement. These effects degrade the Bragg diffraction on femtosecond time scales and gate the ultrafast imaging. This process is intensity and resolution dependent. At high intensities the signal is gated by the ionization affecting low resolution information first. At lower intensities, atomic displacement dominates the loss of coherence affecting high-resolution information. We find that pulse length is not a limiting factor as long as there is a high enough X-ray flux to measure a diffracted signal.

  • 4. Chalupsky, J
    et al.
    Juha, L
    Hajkova, V
    Cihelka, J
    Vysin, L
    Gautier, J
    Hajdu, J
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology.
    Hau-Riege, P
    Jurek, M
    Krzywinski, J
    London, A
    Papalazarou, E
    Pelka, B
    Rey, G
    Sebban, S
    Sobierajski, R
    Stojanovic, N
    Tiedtke, K
    Toleikis, S
    Tschentscher, T
    Valentin, C
    Wabnitz, H
    Zeitoun, P
    Non-thermal desorption/ablation of molecular solids induced by ultra-short soft x-ray pulses2009In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 17, no 1, p. 208-217Article in journal (Refereed)
    Abstract [en]

    We report the first observation of single-shot soft x-ray laser induced desorption occurring below the ablation threshold in a thin layer of poly ( methyl methacrylate) - PMMA. Irradiated by the focused beam from the Free-electron LASer in Hamburg ( FLASH) at 21.7nm, the samples have been investigated by atomic-force microscope (AFM) enabling the visualization of mild surface modifications caused by the desorption. A model describing non-thermal desorption and ablation has been developed and used to analyze single-shot imprints in PMMA. An intermediate regime of materials removal has been found, confirming model predictions. We also report below-threshold multiple-shot desorption of PMMA induced by high-order harmonics (HOH) at 32nm. Short-time exposure imprints provide sufficient information about transverse beam profile in HOH's tight focus whereas long-time exposed PMMA exhibits radiation-initiated surface hardening making the beam profile measurement infeasible. (C) 2008 Optical Society of America

  • 5. Chalupsky, J.
    et al.
    Juha, L.
    Kuba, J.
    Cihelka, J.
    Hajkova, V.
    Koptyaev, S.
    Krasa, J.
    Velyhan, A.
    Bergh, Magnus
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Caleman, Carl
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Hajdu, Janos
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Bionta, R. M.
    Chapman, H.
    Hau-Riege, S. P.
    London, R. A.
    Jurek, M.
    Krzywinski, J.
    Nietubyc, R.
    Pelka, J. B.
    Sobierajski, R.
    Meyer-ter-Vehn, J.
    Tronnier, A.
    Sokolowski-Tinten, K.
    Stojanovic, N.
    Tiedtke, K.
    Toleikis, S.
    Tschentscher, T.
    Wabnitz, H.
    Zastrau, U.
    Characteristics of focused soft X-ray free-electron laser beam determined by ablation of organic molecular solids2007In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 15, no 10, p. 6036-6043Article in journal (Refereed)
    Abstract [en]

    A linear accelerator based source of coherent radiation, FLASH (Free-electron LASer in Hamburg) provides ultra-intense femtosecond radiation pulses at wavelengths from the extreme ultraviolet (XUV; lambda< 100nm) to the soft X-ray (SXR; lambda<30nm) spectral regions. 25-fs pulses of 32-nm FLASH radiation were used to determine the ablation parameters of PMMA - poly ( methyl methacrylate). Under these irradiation conditions the attenuation length and ablation threshold were found to be (56.9 +/- 7.5) nm and similar to 2 mJ center dot cm(-2), respectively. For a second wavelength of 21.7 nm, the PMMA ablation was utilized to image the transverse intensity distribution within the focused beam at mu m resolution by a method developed here.

  • 6.
    Forsberg, Pontus
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Microsystems Technology.
    Karlsson, Mikael
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Microsystems Technology.
    Inclined surfaces in diamond: broadband antireflective structures and coupling light through waveguides2013In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 21, no 3, p. 2693-2700Article in journal (Refereed)
    Abstract [en]

     Control of the sidewall angle of diamond microstructures was achieved by varying the gas mixture, bias power and mask shape during inductively coupled plasma etching. Different etch mechanisms were responsible for the angle of the lower and upper part of the sidewall formed during diamond etching. These angles could to some extent be controlled separately. The developed etch process was used to fabricate wideband antireflective structures with an average transmission of 96.4% for wavelengths between 10 and 50 mu m. Smooth facetted edges for coupling light through waveguides from above were also demonstrated. 

  • 7. Fredenberg, Erik
    et al.
    Cederström, Björn
    Nillius, Peter
    Ribbing, Carolina
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Applied Materials Sciences.
    Karlsson, Staffan
    Danielsson, Mats
    A low-absorption x-ray energy filter for small-scale applications2009In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 17, no 14, p. 11388-11398Article in journal (Refereed)
    Abstract [en]

    We present an experimental and theoretical evaluation of an x-ray energy filter based on the chromatic properties of a prism-array lens (PAL). It is intended for small-scale applications such as medical imaging. The PAL approximates a Fresnel lens and allows for high efficiency compared to filters based on ordinary refractive lenses, however at the cost of a lower energy resolution. Geometrical optics was found to provide a good approximation for the performance of a flawless lens, but a field-propagation model was used for quantitative predictions. The model predicted a 0.29 Delta E/E energy resolution and an intensity gain of 6.5 for a silicon PAL at 23.5 keV. Measurements with an x-ray tube showed good agreement with the model in energy resolution and peak energy, but a blurred focal line contributed to a 29% gain reduction. We believe the blurring to be caused mainly by lens imperfections, in particular at the periphery of the lens. (C) 2009 Optical Society of America

  • 8. Ge, X.
    et al.
    Boutu, W.
    Gauthier, D.
    Wang, F.
    Borta, A.
    Barbrel, B.
    Ducousso, M.
    Gonzalez, A. I.
    Carre, B.
    Guillaumet, D.
    Perdrix, M.
    Gobert, O.
    Gautier, J.
    Lambert, G.
    Maia, Filipe R. N. C.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Hajdu, Janos
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Zeitoun, P.
    Merdji, H.
    Impact of wave front and coherence optimization in coherent diffractive imaging2013In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 21, no 9, p. 11441-11447Article in journal (Refereed)
    Abstract [en]

    We present single shot nanoscale imaging using a table-top femtosecond soft X-ray laser harmonic source at a wavelength of 32 nm. We show that the phase retrieval process in coherent diffractive imaging critically depends on beam quality. Coherence and image fidelity are measured from single-shot coherent diffraction patterns of isolated nano-patterned slits. Impact of flux, wave front and coherence of the soft X-ray beam on the phase retrieval process and the image quality are discussed. After beam improvements, a final image reconstruction is presented with a spatial resolution of 78 nm (half period) in a single 20 fs laser harmonic shot. 

  • 9. Glownia, James M.
    et al.
    Cryan, J.
    Andreasson, Jakob
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Belkacem, A.
    Berrah, N.
    Blaga, C. I.
    Bostedt, C.
    Bozek, J.
    DiMauro, L. F.
    Fang, L.
    Frisch, J.
    Gessner, O.
    Guehr, M.
    Hajdu, Janos
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Hertlein, M. P.
    Hoener, M.
    Huang, G.
    Kornilov, O.
    Marangos, J. P.
    March, A. M.
    McFarland, B. K.
    Merdji, H.
    Petrovic, V. S.
    Raman, C.
    Ray, D.
    Reis, D. A.
    Trigo, M.
    White, J. L.
    White, W.
    Wilcox, R.
    Young, L.
    Coffee, R. N.
    Bucksbaum, P. H.
    Time-resolved pump-probe experiments at the LCLS2010In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 18, no 17, p. 17620-17630Article in journal (Refereed)
    Abstract [en]

    The first time-resolved x-ray/optical pump-probe experiments at the SLAC Linac Coherent Light Source (LCLS) used a combination of feedback methods and post-analysis binning techniques to synchronize an ultrafast optical laser to the linac-based x-ray laser. Transient molecular nitrogen alignment revival features were resolved in time-dependent x-ray-induced fragmentation spectra. These alignment features were used to find the temporal overlap of the pump and probe pulses. The strong-field dissociation of x-ray generated quasi-bound molecular dications was used to establish the residual timing jitter. This analysis shows that the relative arrival time of the Ti:Sapphire laser and the x-ray pulses had a distribution with a standard deviation of approximately 120 fs. The largest contribution to the jitter noise spectrum was the locking of the laser oscillator to the reference RF of the accelerator, which suggests that simple technical improvements could reduce the jitter to better than 50 fs.

  • 10.
    Hägglund, Carl
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Solid State Electronics. Chalmers University of Technology.
    Apell, S. P.
    Chalmers University of Technology.
    Resource efficient plasmon-based 2D-photovoltaics with reflective support2010In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 18, no S3, p. A343-A356Article in journal (Refereed)
  • 11.
    Karlsson, Mikael
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Materials Science.
    Nikolajeff, Fredrik
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Materials Science.
    Diamond micro-optics: microlenses and antireflection structured surfaces for the infrared spectral region2003In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 11, no 5, p. 502-507Article in journal (Refereed)
    Abstract [en]

    Fabrication and evaluation of a subwavelength grating in diamond, designed to reduce the Fresnel reflection, is demonstrated. The antireflection (AR) structures are designed to reduce the surface reflection at an illuminating wavelength of 10.6 µm. With this AR-treatment, where no other material is introduced (i.e., no thin film coating), the unique properties of diamond can be fully used. The fabricated AR structures were optically evaluated with a spectrophotometer. The transmission through a diamond substrate with AR structures on both sides was increased from 71% to 97%, with a theoretical value of 99%. Microlenses in diamond are also demonstrated. The lenses are evaluated with interferometers and show good performance. The micro-optical structures were fabricated by electron-beam lithography or photolithographic methods followed by plasma etching.

  • 12.
    Karlsson, Mikael
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Materials Science.
    Nikolajeff, Fredrik
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Materials Science.
    Fabrication and evaluation of a diamond diffractive fan-out element for high power lasers2003In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 11, no 3, p. 191-198Article in journal (Refereed)
    Abstract [en]

    Fabrication and evaluation of diamond binary diffractive fan-out elements is demonstrated. The diffractive optical elements (DOEs) are designed for two different wavelengths, 633 nm and 10.6 µm. The DOE splits an incident beam into 16 spots that form a ring pattern. The surface reliefs were fabricated by photolithographic methods followed by plasma etching, which produced well-defined patterns with smooth surfaces. One DOE was optically evaluated with a HeNe laser, operating at a wavelength of 633 nm, and showed good performance. The DOE designed for a wavelength at 10.6 µm was tested together with a carbon dioxide laser. The light pattern was used to microstructure a 10 mm thick PMMA piece with very good results.

  • 13. Kassemeyer, Stephan
    et al.
    Steinbrener, Jan
    Lomb, Lukas
    Hartmann, Elisabeth
    Aquila, Andrew
    Barty, Anton
    Martin, Andrew V
    Hampton, Christina Y
    Bajt, Saša
    Barthelmess, Miriam
    Barends, Thomas R M
    Bostedt, Christoph
    Bott, Mario
    Bozek, John D
    Coppola, Nicola
    Cryle, Max
    Deponte, Daniel P
    Doak, R Bruce
    Epp, Sascha W
    Erk, Benjamin
    Fleckenstein, Holger
    Foucar, Lutz
    Graafsma, Heinz
    Gumprecht, Lars
    Hartmann, Andreas
    Hartmann, Robert
    Hauser, Günter
    Hirsemann, Helmut
    Hömke, André
    Holl, Peter
    Jönsson, Olof
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Kimmel, Nils
    Krasniqi, Faton
    Liang, Mengning
    Maia, Filipe R N C
    Marchesini, Stefano
    Nass, Karol
    Reich, Christian
    Rolles, Daniel
    Rudek, Benedikt
    Rudenko, Artem
    Schmidt, Carlo
    Schulz, Joachim
    Shoeman, Robert L
    Sierra, Raymond G
    Soltau, Heike
    Spence, John C H
    Starodub, Dmitri
    Stellato, Francesco
    Stern, Stephan
    Stier, Gunter
    Svenda, Martin
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Weidenspointner, Georg
    Weierstall, Uwe
    White, Thomas A
    Wunderer, Cornelia
    Frank, Matthias
    Chapman, Henry N
    Ullrich, Joachim
    Strüder, Lothar
    Bogan, Michael J
    Schlichting, Ilme
    Femtosecond free-electron laser x-ray diffraction data sets for algorithm development2012In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 20, no 4, p. 4149-4158Article in journal (Refereed)
    Abstract [en]

    We describe femtosecond X-ray diffraction data sets of viruses and nanoparticles collected at the Linac Coherent Light Source. The data establish the first large benchmark data sets for coherent diffraction methods freely available to the public, to bolster the development of algorithms that are essential for developing this novel approach as a useful imaging technique. Applications are 2D reconstructions, orientation classification and finally 3D imaging by assembling 2D patterns into a 3D diffraction volume.

  • 14.
    Landström, Lars
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Materials Chemistry, Inorganic Chemistry.
    Brodoceanu, D
    Bäuerle, D
    Garcia-Vidal, J
    Rodrigo, Sergio G.
    Martin-Moreno, L
    Extraordinary transmission through metal-coated monolayers of microspheres2009In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 17, no 2, p. 761-772Article in journal (Refereed)
    Abstract [en]

    The spectral dependence of the extraordinary transmission through monolayers of close-packed silica or polystyrene microspheres on a quartz support, covered with different thin metal films (Ag, Au and Ni) was investigated. The measured spectra were compared with modeled transmission spectra using finite difference time domain (FDTD) calculations. Measured and modeled spectra show good overall agreement. The supported modes in the sphere array were found to be of utmost importance for the transmission mechanism and the results also suggest that the presence of guided modes in the photonic crystal may further enhance the extraordinary transmission through the metal film.

  • 15. Linder, Tomas
    et al.
    Löfqvist, Torbjörn
    Wernersson, Erik L. G.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Visual Information and Interaction. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computerized Image Analysis and Human-Computer Interaction.
    Gren, Per
    Light scattering in fibrous media with different degrees of in-plane fiber alignment2014In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 22, no 14, p. 16829-16840Article in journal (Refereed)
    Abstract [en]

    Fiber orientation is an important structural property in paper and other fibrous materials. In this study we explore the relation between light scattering and in-plane fiber orientation in paper sheets. Light diffusion from a focused light source is simulated using a Monte Carlo technique where parameters describing the paper micro-structure were determined from 3D x-ray computed tomography images. Measurements and simulations on both spatially resolved reflectance and transmittance light scattering patterns show an elliptical shape where the main axis is aligned towards the fiber orientation. Good qualitative agreement was found at low intensities and the results indicate that fiber orientation in thin fiber-based materials can be determined using spatially resolved reflectance or transmittance.

  • 16.
    Lingfors, David
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Solid State Physics.
    Volotinen, Tarja
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Solid State Physics.
    Illumination performance and energy saving of a solar fiber optic lighting system2013In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 21, no 13, p. A642-A655Article in journal (Refereed)
    Abstract [en]

    The illumination performance and energy savings of a solar fiber optic lighting system have been verified in a study hall - corridor interior. The system provides intensive white light with a high luminous flux of 4500 lm under 130000 lx direct sun radiation at a 10 m fiber distance from the sun-tracking light collector. The color temperature that describes the light color perceived is 5800 +/- 300 K, i.e. close to the direct sunlight outside, and the color rendering index (86), that describes how well colors are rendered under the light source, is higher for the solar lights than for the supplementary fluorescent lights (77). Thus this high quality solar lighting improves the visibility of all kinds of objects compared to the fluorescent lights. Annual lighting energy savings of 19% in Uppsala, Sweden and 46% in southern Europe were estimated for a study hall interior, as well as 27% and 55% respectively in an interior illuminated 16 h per day all days of a year. 

  • 17.
    Liu, Jing
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computational Science.
    van der Schot, Gijs
    Engblom, Stefan
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computational Science.
    Supervised classification methods for flash X-ray single particle diffraction imaging2019In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 27, p. 3884-3899Article in journal (Refereed)
  • 18. Loh, N. Duane
    et al.
    Starodub, Dmitri
    Lomb, Lukas
    Hampton, Christina Y.
    Martin, Andrew V.
    Sierra, Raymond G.
    Barty, Anton
    Aquila, Andrew
    Schulz, Joachim
    Steinbrener, Jan
    Shoeman, Robert L.
    Kassemeyer, Stephan
    Bostedt, Christoph
    Bozek, John
    Epp, Sascha W.
    Erk, Benjamin
    Hartmann, Robert
    Rolles, Daniel
    Rudenko, Artem
    Rudek, Benedikt
    Foucar, Lutz
    Kimmel, Nils
    Weidenspointner, Georg
    Hauser, Guenter
    Holl, Peter
    Pedersoli, Emanuele
    Liang, Mengning
    Hunter, Mark S.
    Gumprecht, Lars
    Coppola, Nicola
    Wunderer, Cornelia
    Graafsma, Heinz
    Maia, Filipe R. N. C.
    Ekeberg, Tomas
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Hantke, Max Felix
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Fleckenstein, Holger
    Hirsemann, Helmut
    Nass, Karol
    White, Thomas A.
    Tobias, Herbert J.
    Farquar, George R.
    Benner, W. Henry
    Hau-Riege, Stefan
    Reich, Christian
    Hartmann, Andreas
    Soltau, Heike
    Marchesini, Stefano
    Bajt, Sasa
    Barthelmess, Miriam
    Strueder, Lothar
    Ullrich, Joachim
    Bucksbaum, Philip
    Frank, Matthias
    Schlichting, Ilme
    Chapman, Henry N.
    Bogan, Michael J.
    Sensing the wavefront of x-ray free-electron lasers using aerosol spheres2013In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 21, no 10, p. 12385-12394Article in journal (Refereed)
    Abstract [en]

    Characterizing intense, focused x-ray free electron laser (FEL) pulses is crucial for their use in diffractive imaging. We describe how the distribution of average phase tilts and intensities on hard x-ray pulses with peak intensities of 1021 W/m(2) can be retrieved from an ensemble of diffraction patterns produced by 70 nm-radius polystyrene spheres, in a manner that mimics wavefront sensors. Besides showing that an adaptive geometric correction may be necessary for diffraction data from randomly injected sample sources, our paper demonstrates the possibility of collecting statistics on structured pulses using only the diffraction patterns they generate and highlights the imperative to study its impact on single-particle diffractive imaging.

  • 19. Mari, E.
    et al.
    Tamburini, F.
    Swartzlander, G. A., Jr.
    Bianchini, A.
    Barbieri, C.
    Romanato, F.
    Thidé, Bo
    Uppsala University, Disciplinary Domain of Science and Technology, Physics, Swedish Institute of Space Physics, Uppsala Division.
    Sub-Rayleigh optical vortex coronagraphy2012In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 20, no 3, p. 2445-2451Article in journal (Refereed)
    Abstract [en]

    We introduce a new optical vortex coronagraph(OVC) method to determine the angular distance between two sources when the separation is sub-Rayleigh. We have found a direct relationship between the position of the minima and the source angular separation. A priori knowledge about the location of the two sources is not required. The superresolution capabilities of an OVC, equipped with an l = 2 N-step spiral phase plate in its optical path, were investigated numerically. The results of these investigations show that a fraction of the light, increasing with N, from the secondary source can be detected with a sub-Rayleigh resolution of at least 0.1 lambda/D.

  • 20. Martin, A. V.
    et al.
    Loh, N. D.
    Hampton, C. Y.
    Sierra, R. G.
    Wang, F.
    Aquila, A.
    Bajt, S.
    Barthelmess, M.
    Bostedt, C.
    Bozek, J. D.
    Coppola, N.
    Epp, S. W.
    Erk, B.
    Fleckenstein, H.
    Foucar, L.
    Frank, M.
    Graafsma, H.
    Gumprecht, L.
    Hartmann, A.
    Hartmann, R.
    Hauser, G.
    Hirsemann, H.
    Holl, P.
    Kassemeyer, S.
    Kimmel, N.
    Liang, M.
    Lomb, L.
    Maia, F. R. N. C.
    NERSC, Lawrence Berkeley National Laboratory, Berkeley,California 94720, USA .
    Marchesini, S.
    Nass, K.
    Pedersoli, E.
    Reich, C.
    Rolles, D.
    Rudek, B.
    Rudenko, A.
    Schulz, J.
    Shoeman, R. L.
    Soltau, H.
    Starodub, D.
    Steinbrener, J.
    Stellato, F.
    Strüder, L.
    Ullrich, J.
    Weidenspointner, G.
    White, T. A.
    Wunderer, C. B.
    Barty, A.
    Schlichting, I.
    Bogan, M. J.
    Chapman, H. N.
    Femtosecond dark-field imaging with an X-ray free electron laser2012In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 20, no 12, p. 13501-13512Article in journal (Refereed)
    Abstract [en]

    The emergence of femtosecond diffractive imaging with X-ray lasers has enabled pioneering structural studies of isolated particles, such as viruses, at nanometer length scales. However, the issue of missing low frequency data significantly limits the potential of X-ray lasers to reveal sub-nanometer details of micrometer-sized samples. We have developed a new technique of dark-field coherent diffractive imaging to simultaneously overcome the missing data issue and enable us to harness the unique contrast mechanisms available in dark-field microscopy. Images of airborne particulate matter (soot) up to two microns in length were obtained using single-shot diffraction patterns obtained at the Linac Coherent Light Source, four times the size of objects previously imaged in similar experiments. This technique opens the door to femtosecond diffractive imaging of a wide range of micrometer-sized materials that exhibit irreproducible complexity down to the nanoscale, including airborne particulate matter, small cells, bacteria and gold-labeled biological samples.

  • 21. Martin, A. V.
    et al.
    Morgan, A. J.
    Ekeberg, Tomas
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Loh, N. D.
    Maia, Filipe R. N. C.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Wang, F.
    Spence, J. C. H.
    Chapman, H. N.
    The extraction of single-particle diffraction patterns from a multiple-particle diffraction pattern2013In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 21, no 13, p. 15102-15112Article in journal (Refereed)
    Abstract [en]

    The structures of biological molecules may soon be determined with X-ray free-electron lasers without crystallization by recording the coherent diffraction patterns of many identical copies of a molecule. Most analysis methods require a measurement of each molecule individually. However, current injection methods deliver particles to the X-ray beam stochastically and the maximum yield of single particle measurements is 37% at optimal concentration. The remaining 63% of pulses intercept no particles or multiple particles. We demonstrate that in the latter case single particle diffraction patterns can be extracted provided the particles are sufficiently separated. The technique has the potential to greatly increase the amount of data available for three-dimensional imaging of identical particles with X-ray lasers.

  • 22. Martin, A. V.
    et al.
    Wang, F.
    Loh, N. D.
    Ekeberg, Tomas
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Maia, F. R. N. C.
    Hantke, Max Felix
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    van der Schot, Gijs
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Hampton, C. Y.
    Sierra, R. G.
    Aquila, A.
    Bajt, S.
    Barthelmess, M.
    Bostedt, C.
    Bozek, J. D.
    Coppola, N.
    Epp, S. W.
    Erk, B.
    Fleckenstein, H.
    Foucar, L.
    Frank, M.
    Graafsma, H.
    Gumprecht, L.
    Hartmann, A.
    Hartmann, R.
    Hauser, G.
    Hirsemann, H.
    Holl, P.
    Kassemeyer, S.
    Kimmel, N.
    Liang, M.
    Lomb, L.
    Marchesini, S.
    Nass, K.
    Pedersoli, E.
    Reich, C.
    Rolles, D.
    Rudek, B.
    Rudenko, A.
    Schulz, J.
    Shoeman, R. L.
    Soltau, H.
    Starodub, D.
    Steinbrener, J.
    Stellato, F.
    Strueder, L.
    Ullrich, J.
    Weidenspointner, G.
    White, T. A.
    Wunderer, C. B.
    Barty, A.
    Schlichting, I.
    Bogan, M. J.
    Chapman, H. N.
    Noise-robust coherent diffractive imaging with a single diffraction pattern2012In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 20, no 15, p. 16650-16661Article in journal (Refereed)
    Abstract [en]

    The resolution of single-shot coherent diffractive imaging at X-ray free-electron laser facilities is limited by the low signal-to-noise level of diffraction data at high scattering angles. The iterative reconstruction methods, which phase a continuous diffraction pattern to produce an image, must be able to extract information from these weak signals to obtain the best quality images. Here we show how to modify iterative reconstruction methods to improve tolerance to noise. The method is demonstrated with the hybrid input-output method on both simulated data and single-shot diffraction patterns taken at the Linac Coherent Light Source. (C) 2012 Optical Society of America

  • 23. Nelson, A. J.
    et al.
    Toleikis, S.
    Chapman, H.
    Bajt, S.
    Krzywinski, J.
    Chalupsky, J.
    Juha, L.
    Cihelka, J.
    Hajkova, V.
    Vysin, L.
    Burian, T.
    Kozlova, M.
    Fäustlin, R. R.
    Nagler, B.
    Vinko, S. M.
    Whitcher, T.
    Dzelzainis, T.
    Renner, O.
    Saksl, K.
    Khorsand, A. R.
    Heimann, P. A.
    Sobierajski, R.
    Klinger, D.
    Jurek, M.
    Pelka, J.
    Iwan, Bianca
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Andreasson, Jakob
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Timneanu, Nicusor
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Fajardo, M.
    Wark, J. S.
    Riley, D.
    Tschentscher, T.
    Hajdu, Janos
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Lee, R. W.
    Soft x-ray free electron laser microfocus for exploring matter under extreme conditions2009In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 17, no 20, p. 18271-18278Article in journal (Refereed)
    Abstract [en]

    We have focused a beam (BL3) of FLASH (Free-electron LASer in Hamburg: lambda = 13.5 nm, pulse length 15 fs, pulse energy 10-40 mu J, 5Hz) using a fine polished off-axis parabola having a focal length of 270 mm and coated with a Mo/Si multilayer with an initial reflectivity of 67% at 13.5 nm. The OAP was mounted and aligned with a picomotor controlled six-axis gimbal. Beam imprints on poly(methyl methacrylate) -PMMA were used to measure focus and the focused beam was used to create isochoric heating of various slab targets. Results show the focal spot has a diameter of <= 1 mu m. Observations were correlated with simulations of best focus to provide further relevant information.

  • 24.
    Papaioannou, Evangelos Th.
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Physics, Department of Physics and Astronomy, Materials Physics.
    Kapaklis, Vassilios
    Uppsala University, Disciplinary Domain of Science and Technology, Physics, Department of Physics and Astronomy, Materials Physics.
    Melander, Emil
    Uppsala University, Disciplinary Domain of Science and Technology, Physics, Department of Physics and Astronomy, Materials Physics.
    Hjörvarsson, Björgvin
    Uppsala University, Disciplinary Domain of Science and Technology, Physics, Department of Physics and Astronomy, Materials Physics.
    Pappas, Spiridon D.
    Patoka, Piotr
    Giersig, Michael
    Fumagalli, Paul
    Garcia-Martin, Antonio
    Ctistis, Georgios
    Surface plasmons and magneto-optic activity in hexagonal Ni anti-dot arrays2011In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 19, no 24, p. 23867-23877Article in journal (Refereed)
    Abstract [en]

    The influence of surface plasmons on the magneto-optic activity in a two-dimensional hexagonal array is addressed. The experiments were performed using hexagonal array of circular holes in a ferromagnetic Ni film. Well pronounced troughs are observed in the optical reflectivity, resulting from the presence of surface plasmons. The surface plasmons are found to strongly enhance the magneto-optic response (Kerr rotation), as compared to a continuous film of the same composition. The influence of the hexagonal symmetry of the pattern on the coupling between the plasmonic excitations is demonstrated, using optical diffraction measurements and theoretical calculations of the magneto-optic and of the angular dependence of the optical activity.

  • 25. Park, Hyung Joo
    et al.
    Loh, N. Duane
    Sierra, Raymond G.
    Hampton, Christina Y.
    Starodub, Dmitri
    Martin, Andrew V.
    Barty, Anton
    Aquila, Andrew
    Schulz, Joachim
    Steinbrener, Jan
    Shoeman, Robert L.
    Lomb, Lukas
    Kassemeyer, Stephan
    Bostedt, Christoph
    Bozek, John
    Epp, Sascha W.
    Erk, Benjamin
    Hartmann, Robert
    Rolles, Daniel
    Rudenko, Artem
    Rudek, Benedikt
    Foucar, Lutz
    Kimmel, Nils
    Weidenspointner, Georg
    Hauser, Guenter
    Holl, Peter
    Pedersoli, Emanuele
    Liang, Mengning
    Hunter, Mark S.
    Gumprecht, Lars
    Coppola, Nicola
    Wunderer, Cornelia
    Graafsma, Heinz
    Maia, Filipe R. N. C.
    Ekeberg, Tomas
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Hantke, Max Felix
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Fleckenstein, Holger
    Hirsemann, Helmut
    Nass, Karol
    Tobias, Herbert J.
    Farquar, George R.
    Benner, W. Henry
    Hau-Riege, Stefan
    Reich, Christian
    Hartmann, Andreas
    Soltau, Heike
    Marchesini, Stefano
    Bajt, Sasa
    Barthelmess, Miriam
    Strueder, Lothar
    Ullrich, Joachim
    Bucksbaum, Philip
    Frank, Matthias
    Schlichting, Ilme
    Chapman, Henry N.
    Bogan, Michael J.
    Elser, Veit
    Toward unsupervised single-shot diffractive imaging of heterogeneous particles using X-ray free-electron lasers2013In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 21, no 23, p. 28729-28742Article in journal (Refereed)
    Abstract [en]

    Single shot diffraction imaging experiments via X-ray free-electron lasers can generate as many as hundreds of thousands of diffraction patterns of scattering objects. Recovering the real space contrast of a scattering object from these patterns currently requires a reconstruction process with user guidance in a number of steps, introducing severe bottlenecks in data processing. We present a series of measures that replace user guidance with algorithms that reconstruct contrasts in an unsupervised fashion. We demonstrate the feasibility of automating the reconstruction process by generating hundreds of contrasts obtained from soot particle diffraction experiments.

  • 26.
    Pietrini, Alberto
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Nettelblad, Carl
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Division of Scientific Computing. Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computational Science.
    Using convex optimization of autocorrelation with constrained support and windowing for improved phase retrieval accuracy2018In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 26, p. 24422-24443Article in journal (Refereed)
  • 27.
    Rath, Asawari D.
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Timneanu, Nicusor
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Maia, Filipe R. N. C.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Bielecki, Johan
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Fleckenstein, Holger
    Iwan, Bianca
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Svenda, Martin
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Hasse, Dirk
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Carlsson, Gunilla
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Westphal, Daniel
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Mühlig, Kerstin
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Hantke, Max
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Ekeberg, Tomas
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Seibert, M. Marvin
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Zani, Alessandro
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Liang, Mengning
    Stellato, Francesco
    Kirian, Richard
    Bean, Richard
    Barty, Anton
    Galli, Lorenzo
    Nass, Karol
    Barthelmess, Miriam
    Aquila, Andrew
    Toleikis, Sven
    Treusch, Rolf
    Roling, Sebastian
    Wöstmann, Michael
    Zacharias, Helmut
    Chapman, Henry N.
    Bajt, Saša
    DePonte, Daniel
    Hajdu, Janos
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Andreasson, Jakob
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Explosion dynamics of sucrose nanospheres monitored by time of flight spectrometry and coherent diffractive imaging at the split-and-delay beam line of the FLASH soft X-ray laser2014In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 22, no 23, p. 28914-28925Article in journal (Refereed)
    Abstract [en]

    We use a Mach-Zehnder type autocorrelator to split and delay XUV pulses from the FLASH soft X-ray laser for triggering and subsequently probing the explosion of aerosolised sugar balls. FLASH was running at 182 eV photon energy with pulses of 70 fs duration. The delay between the pump-probe pulses was varied between zero and 5 ps, and the pulses were focused to reach peak intensities above 1016 W/cm2 with an off-axis parabola. The direct pulse triggered the explosion of single aerosolised sucrose nano-particles, while the delayed pulse probed the exploding structure. The ejected ions were measured by ion time of flight spectrometry, and the particle sizes were measured by coherent diffractive imaging. The results show that sucrose particles of 560-1000 nm diameter retain their size for about 500 fs following the first exposure. Significant sample expansion happens between 500 fs and 1 ps. We present simulations to support these observations.

  • 28.
    Su, Rong
    et al.
    Dept of Production Engineering, KTH, Stockholm.
    Kirillin, Mikhail
    Laboratory of Biophotonics, Institute of Applied Physics RAS, Nizhny Novgorod, Ryssland.
    Ekberg, Peter
    Dept of Production Engineering, KTH, Stockholm.
    Roos, Arne
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Solid State Physics.
    Sergeeva, Ekaterina
    Laboratory of Biophotonics, Institute of Applied Physics RAS, Nizhny Novgorod, Ryssland.
    Mattsson, Lars
    Dept of Production Engineering, KTH, Stockholm.
    Optical coherence tomography for quality assessment of embedded microchannels in alumina ceramic2012In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 20, no 4, p. 4603-4618Article in journal (Refereed)
    Abstract [en]

    Large-scale and cost-effective manufacturing of ceramic micro devices based on tape stacking requires the development of inspection systems to perform high-resolution in-process quality control of embedded manufactured cavities, metal structures and defects. With an optical coherence tomography (OCT) system operating at 1.3 mu m and a dedicated automated line segmentation algorithm, layer thicknesses can be measured and laser-machined channels can be verified in alumina ceramics embedded at around 100 mu m depth. Monte Carlo simulations are employed to analyze the abilities of OCT in imaging of the embedded channels. The light scattering parameters required as input data for simulations are evaluated from the integrating sphere measurements of collimated and diffuse transmittance spectra using a reconstruction algorithm based on refined diffusion approximation approach.

  • 29. Wei, Yangjie
    et al.
    Wu, Chengdong
    Yi, Wang
    Uppsala University, Disciplinary Domain of Science and Technology, Mathematics and Computer Science, Department of Information Technology, Computer Systems.
    Wang, Wenxue
    Diffusion-based three-dimensional reconstruction of complex surface using monocular vision2015In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 23, no 23, p. 30364-30378Article in journal (Refereed)
  • 30. Yoon, Chun Hong
    et al.
    Schwander, Peter
    Abergel, Chantal
    Andersson, Inger
    Andreasson, Jakob
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Aquila, Andrew
    Bajt, Sasa
    Barthelmess, Miriam
    Barty, Anton
    Bogan, Michael J.
    Bostedt, Christoph
    Bozek, John
    Chapman, Henry N.
    Claverie, Jean-Michel
    Coppola, Nicola
    DePonte, Daniel P.
    Ekeberg, Tomas
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Epp, Sascha W.
    Erk, Benjamin
    Fleckenstein, Holger
    Foucar, Lutz
    Graafsma, Heinz
    Gumprecht, Lars
    Hajdu, Janos
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Hampton, Christina Y.
    Hartmann, Andreas
    Hartmann, Elisabeth
    Hartmann, Robert
    Hauser, Gunter
    Hirsemann, Helmut
    Holl, Peter
    Kassemeyer, Stephan
    Kimmel, Nils
    Kiskinova, Maya
    Liang, Mengning
    Loh, Ne-Te Duane
    Lomb, Lukas
    Maia, Filipe R. N. C.
    Martin, Andrew V.
    Nass, Karol
    Pedersoli, Emanuele
    Reich, Christian
    Rolles, Daniel
    Rudek, Benedikt
    Rudenko, Artem
    Schlichting, Ilme
    Schulz, Joachim
    Seibert, Marvin
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Seltzer, Virginie
    Shoeman, Robert L.
    Sierra, Raymond G.
    Soltau, Heike
    Starodub, Dmitri
    Steinbrener, Jan
    Stier, Gunter
    Strueder, Lothar
    Svenda, Martin
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Molecular biophysics.
    Ullrich, Joachim
    Weidenspointner, Georg
    White, Thomas A.
    Wunderer, Cornelia
    Ourmazd, Abbas
    Unsupervised classification of single-particle X-ray diffraction snapshots by spectral clustering2011In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 19, no 17, p. 16542-16549Article in journal (Refereed)
    Abstract [en]

    Single-particle experiments using X-ray Free Electron Lasers produce more than 10(5) snapshots per hour, consisting of an admixture of blank shots (no particle intercepted), and exposures of one or more particles. Experimental data sets also often contain unintentional contamination with different species. We present an unsupervised method able to sort experimental snapshots without recourse to templates, specific noise models, or user-directed learning. The results show 90% agreement with manual classification.

  • 31. Yoon, Chun Hong
    et al.
    Schwander, Peter
    Abergel, Chantal
    Andersson, Inger
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology.
    Andreasson, Jakob
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology.
    Aquila, Andrew
    Bajt, Saša
    Barthelmess, Miriam
    Barty, Anton
    Bogan, Michael J
    Bostedt, Christoph
    Bozek, John
    Chapman, Henry N
    Claverie, Jean-Michel
    Coppola, Nicola
    DePonte, Daniel P
    Ekeberg, Tomas
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology.
    Epp, Sascha W
    Erk, Benjamin
    Fleckenstein, Holger
    Foucar, Lutz
    Graafsma, Heinz
    Gumprecht, Lars
    Hajdu, Janos
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology.
    Hampton, Christina Y
    Hartmann, Andreas
    Hartmann, Elisabeth
    Hartmann, Robert
    Hauser, Gunter
    Hirsemann, Helmut
    Holl, Peter
    Kassemeyer, Stephan
    Kimmel, Nils
    Kiskinova, Maya
    Liang, Mengning
    Loh, Ne-Te Duane
    Lomb, Lukas
    Maia, Filipe R N C
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology.
    Martin, Andrew V
    Nass, Karol
    Pedersoli, Emanuele
    Reich, Christian
    Rolles, Daniel
    Rudek, Benedikt
    Rudenko, Artem
    Schlichting, Ilme
    Schulz, Joachim
    Seibert, Marvin
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology.
    Seltzer, Virginie
    Shoeman, Robert L
    Sierra, Raymond G
    Soltau, Heike
    Starodub, Dmitri
    Steinbrener, Jan
    Stier, Gunter
    Strüder, Lothar
    Svenda, Martin
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology.
    Ullrich, Joachim
    Weidenspointner, Georg
    White, Thomas A
    Wunderer, Cornelia
    Ourmazd, Abbas
    Unsupervised classification of single-particle X-ray diffraction snapshots by spectral clustering.2011In: Optics Express, ISSN 1094-4087, E-ISSN 1094-4087, Vol. 19, no 17, p. 15929-15936Article in journal (Refereed)
    Abstract [en]

    Single-particle experiments using X-ray Free Electron Lasers produce more than 10(5) snapshots per hour, consisting of an admixture of blank shots (no particle intercepted), and exposures of one or more particles. Experimental data sets also often contain unintentional contamination with different species. We present an unsupervised method able to sort experimental snapshots without recourse to templates, specific noise models, or user-directed learning. The results show 90% agreement with manual classification.

1 - 31 of 31
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