Publications

2011

Unsupervised classification of single-particle X-ray diffraction snapshots by spectral clustering.
Chun Hong Yoon, Peter Schwander, Chantal Abergel, Inger Andersson, Jakob Andreasson, Andrew Aquila, Saša Bajt, Miriam Barthelmess, Anton Barty, Michael J. Bogan, Christoph Bostedt, John Bozek, Henry N. Chapman, Jean-Michel Claverie, Nicola Coppola, Daniel P. DePonte, Tomas Ekeberg, Sascha W. Epp, Benjamin Erk, Holger Fleckenstein, Lutz Foucar, Heinz Graafsma, Lars Gumprecht, Janos Hajdu, Christina Y. Hampton, Andreas Hartmann, Elisabeth Hartmann, Robert Hartmann, Gunter Hauser, Helmut Hirsemann, Peter Holl, Stephan Kassemeyer, Nils Kimmel, Maya Kiskinova, Mengning Liang, Ne-Te Duane Loh, Lukas Lomb, Filipe R. N. C. Maia, Andrew V. Martin, Karol Nass, Emanuele Pedersoli, Christian Reich, Daniel Rolles, Benedikt Rudek, Artem Rudenko, Ilme Schlichting, Joachim Schulz, Marvin Seibert, Virginie Seltzer, Robert L. Shoeman, Raymond G. Sierra, Heike Soltau, Dmitri Starodub, Jan Steinbrener, Gunter Stier, Lothar Strüder, Martin Svenda, Joachim Ullrich, Georg Weidenspointner, Thomas A. White, Cornelia Wunderer, and Abbas Ourmazd (2011) Optics Express, 17, 16542-16549.

Multipurpose Modular Experimental Station for the DiProI Beamline of Fermi@Elettra Free Electron Laser.
E. Pedersoli, F. Capotondi, D. Cocco, M. Zangrando, B. Kaulich, R.H. Menk, A. Locatelli, T.O. Mentes, C. Spezzani, G. Sandrin, D.M. Bacescu, M. Kiskinova, S. Bajt, A. Barty, J. Schulz, L. Gumprecht, M. Barthelmess, H.N. Chapman, A.J. Nelson, M. Frank, M.J. Pivovaroff, B.W. Woods, M.J. Bogan, J. Hajdu (2011) Review of Scientific Instruments, 82, 043711. Featured on the cover

New Light on Disordered Ensembles: Ab-Initio Structure Determination of One Particle From Scattering Fluctuations Of Many Copies.
Saldin, D. K.; Poon, H. C.; Bogan, M. J.; Marchesini, S.; Shapiro, D.; Kirian, R. A.; Weierstall, U.; Spence, J. C. H. Physical Review Letters, (2011) 106, 115501.

Femtosecond x‐ray protein nanocrystallography.
H Chapman, P Fromme, A Barty, T White, R Kirian, A Aquila, M Hunter, J Schulz, D Deponte, U Weierstall, Doak, B, Maia, F, Martin, A, Schlichting, I, Lomb, L, Coppola, N, Shoeman, R, Epp, S, Hartman, R, Rolles, D, Rudenko, A, Foucar, L, Kimmel, N, Weidenspointner, G, Holl, P, Liang, M, Barthelmess, M, Caleman, C, Boutet, S, Bogan, M, Kryzwinski, J, Bostedt, C, Bajt, S, Gumprecht, L, Rudek, B, Erk, B, Schmidt, C, Homke, A, Reich, C, Pietschner, D, Struder, L, Hauser, G, Gorke, H, Ullrich, J, Herrmann, S, Schaller, G, Schopper, F, Soltau, H, Kuhnel, K, Messerschmidt, M, Bozek, J, Hau‐Riege, S, Frank, M, Hampton, C, Sierra, R, Starodub, D, Williams, G, Hajdu, J, Timneanu, N, Seibert, M, Andreasson, J, Rocker, A, Jonsson, O, Stern, S, Nass, K, Andritschke, R, Schroter, C, Frasniqi, F, Boe, M, Schmidt, K, Wang, X, Grotjohann, I, Holton, J, Marchesini, S, Schorb, S, Rupp, D, Adolph, M, Gorkhover, T, Hirsemann, H, Potdevin, G, Graafsma, H, Nilsson, B and Spence, J (2011). Nature, 470, 73-77. >>link to paper>>

Single Mimivirus particles intercepted and imaged with an X-ray laser.
Seibert, M. M., Ekeberg, T., Maia, F., Svenda, M., Andreasson, J., Jonsson, O., Odic, D., Iwan, B., Rocker, A., Westphal, D., Deponte, D., Barty, A., Schulz, J., Gumprecht, L., Coppola, N., Aquila, A., Menging, L., White, T., Martin, A., Caleman, C., Stern, S., Abergel, C. C., Seltzer, V., Claverie, J. M., Bostedt, C., Bozek, J. D., Boutet, S., Miahnahri, A. A., Messerschmidt, M., Krzywinski, J., Williams, G., Hodgson, K. O., Bogan, M. J., Hampton, C. Y., Sierra, R. G., Starodub, D., Andersson, I., Bajt, S., Barthelmess, M., Spence, J. C. H., Fromme, P., Weierstall, U., Kirian, R., Hunter, M., Doak, R. B., Marchesini, S., Hau-Riege, S. P., Frank, M., Shoeman, R. L., Lomb, L., Epp, S. W., Hartman, R. L., Rolles, D., Rudenko, A., Schmidt, C., Foucar, L., Kimmel, N., Holl, P., Rudek, B., Erk, B., Homke, A., Reich, C., Pietschner, D., Weidenspointner, G., Struder, L., Hauser, G., Gorke, H., Ullrich, B., Schlichting, I., Herrmann, S., Schaller, G., Schopper, F., Soltau, H., Kuhnel, K. U., Andritschke, R., Schroter, C. D., Krasniqi, F., Bott, M., Schorb, S., Rupp, D., Adolph, M., Gorkhover, T., Hirsemann, H., Potdevin, G., Graafsma, H., Nilsson, B., Chapman, H. N. and Hajdu, J. (2011). Nature, 470, 78-81. >>link to paper>>

Single-particle aerosol mass spectrometry (SPAMS) for high-throughput and rapid analysis of biological aerosols and single cells
M. Frank, E.E. Gard, H. Tobias, K.L. Adams, M.J. Bogan, K.R. Coffee, G.R. Farquar, D.P. Fergenson, A.N. Martin, S. Martin, M. Pitesky, V.J. Riot, A. Srivastava, P.T. Steele, in: Demirev (Ed.) Rapid Characterization of Microorganisms by Mass Spectrometry, American Chemical Society, 2011, in press

X-ray Diffraction from Membrane Protein Nanocrystals
M.S. Hunter, D.P. DePonte, D.A. Shapiro, R.A. Kirian, X. Wang, D. Starodub, S. Marchesini, U. Weierstall, R.B. Doak, J.C.H. Spence, P. Fromme, Biophysical Journal, 100 (2011) 198-206.

Reconstruction of the electron density of molecules with single axis alignment.
D. Starodub, J.C.H. Spence, D.K. Saldin, Proc. SPIE, 7800 (2011) 78000O78001-78009.

2010

*Single-Particle Coherent Diffractive Imaging with a Soft X-ray Free Electron Laser: Towards Soot Aerosol Morphology
M. J. Bogan, D. Starodub, C. Y. Hampton, R. Sierra
Journal of Physics B: At. Mol. Opt. Phys. 43, 194013, (2010) invited article to the special issue "8 Years of FLASH" » link to article

*Aerosol Imaging with a Soft X-ray Free Electron Laser
M. J. Bogan, S. Boutet, H. N. Chapman, S. Marchesini, A. Barty, W. H. Benner S. Marchesini, A. Barty, U. Rohner, M. Frank, S. P. Hau-Riege, S. Bajt, B. Woods, M. M. Seibert, B. Iwan, N. Timneanu, J. Hajdu, J. Schulz
Aerosol Science and Technology, 44, i-vi, (2010) published as the inaugural Aerosol Research Letter » link to article

*Cryptotomography: Reconstructing 3D Intensities from Randomly Oriented Single-Shot Diffraction Patterns
N. D. Loh, M. J. Bogan, V. Elser, A. Barty, S. Boutet, S. Bajt, J. Hajdu, T. Ekeberg, F. R. N. C. Maia, J. Schulz, M. M. Seibert, B. Iwan, N. Timneanu, S. Marchesini, I. Schlichting, R. L. Shoeman, L. Lomb, M. Frank, M. Liang, H. N. Chapman
Physical Review Letters, 104, 225501, (2010) » link to article

*Reconstruction of the Electron Density of Molecules with Single-Axis Alignment
D. Starodub, J. Spence, D. Saldin
Proc. SPIE, Vol. 7800, 24, (2010) » link to article

*Single-Shot Femtosecond X-ray Diffraction from Identical Ellipsoidal Nanoparticles in Unknown Random Orientations
M. J. Bogan, S. Boutet, A. Barty, W. H. Benner, M. Frank, R. Shoeman, D. Starodub, M. M. Seibert, S. P. Hau-Riege, B. Woods, P. Decorwin-Martin, S. Bajt, J. Schulz, U. Rohner, B. Iwan, N. Timneanu, S. Marchesini, I. Schlichting, J. Hajdu, H. N. Chapman
Physical Review Special Topics: Accelerators and Beams, (2010) 13, 094701 » link to article

*Femtosecond Diffractive Imaging of Biological Cells
M. M. Siebert, S. Boutet, M. Svenda, T. Ekeberg, F. N. R. C. Maia, M. J. Bogan, N. Timneanu, A. Barty, S. P. Hau-Riege, C. Caleman, M. Frank, W. H. Benner, J. Y. Lee, S. Marchesini, J. W. Shaevitz, D. A. Fletcher, H. N. Chapman, J. Hajdu
J. Phys. B: At. Mol. Opt. Phys., 43, 194015, (2010) » link to article

Reconstruction from a Single Diffraction Pattern of Azimuthally Projected Electron Density of Molecules Aligned Parallel to a Single Axis
D. K. Saldin, V. L. Schneerson, D. Starodub, J. C. H. Spence
Acta Crystallographica Section A, 66, 32-37, (2010) » link to article

*Sacrificial Tamper Slows Down Explosion in FLASH Diffraction Experiments
S. P. Hau-Riege, S. Boutet, A. Barty, S. Bajt, M. J. Bogan, M. Frank, J. Andreasson, B. Iwan, M. M. Seibert, J. Hajdu, A. Sakdinawat, J. Schulz, R. Truesch, H. N. Chapman
Physical Review Letters, 104, 064801 (2010) » link to article

*Structure of a Single Particle from Scattering by Many Particles Randomly Oriented About an Axis: A New Route to Structure Determination?
D. K. Saldin, V. L. Shneerson, M. Howells, S. Marchesini, H. N. Chapman, M. J. Bogan, D. Shapiro, R. A. Kirian, K. E. Schmidt, J. C. H. Spence
New Journal of Physics, 12, 035014, (2010) » link to article

*Analysis of Volatile and Non-Volatile Biomarkers in Human Breath Using Differential Mobility Spectrometry
C. E. Davis, M. J. Bogan, S. Sankaran, M. A. Molina, B. R. Loyola, W. Zhao et al.
IEEE Sensors Journal, 10, 114, (2010) » link to article

2009

*Single Particle Diffraction at FLASH
M.J. Bogan, S. Boutet, D. Starodub, P. Decorwin-Martin, H. N. Chapman, et al.
23rd Particle Accelerator Conference Vancouver, Canada, 2009), p. FR3RBI01.

*Coherent Imaging at FLASH
H.N. Chapman, S. Bajt, A. Barty, M. J. Bogan, S. Boutet, et al.
Journal of Physics: Conf. Ser. 186, 012051 (2009). » link to article

*Safe Biodegradable Fluorescent Particles
S. I. Martin, D. P. Fergenson, A. Srivastava, M. J. Bogan, V. J. Riot, M. Frank.
Patent: 20090221087

Molecular Structure Determination From X-ray Scattering Patterns of Laser Aligned Symmetric-Top Molecules
P. J. Ho, D. Starodub, D. K. Saldin, V. L. Shneerson, A. Ourmazd, R. Santra
The Journal of Chemical Physics 131, 131101 (2009) » link to article

2008

*Single Particle X-ray Diffractive Imaging
M. J. Bogan, W. H. Benner, S. Boutet, U. Rohner, M. Frank, A. Barty et al.
Nano Letters, 8, 310-316 (2008) » link to article

*Massively Parallel X-ray Holography
S. Marchesini, S. Boutet, A. E. Sakdinawat, M. J. Bogan, S. Bajt, A. Barty et al.
Nature Photonics, 2, 560-563 (2008) » link to article

*Parameters Contributing to Efficient Ion Generation in Aerosol MALDI Mass Spectrometry
E. McJimpsey, W. Jackson, C. Lebrilla, H. Tobias, M. J. Bogan, E. Gard et al.
Journal of the American Society for Mass Spectrometry, 19, 315-324 (2008) » link to article

*Ultrafast Soft X-ray Scattering and Reference-Enhanced Imaging of Weakly Scattering Nanoparticles
S. Boutet, M. J. Bogan, A. Barty, M. Frank, W. H. Benner, S. Marchesini et al
. Journal of Electron Spectroscopy and Related Phenomena, 166-167, 65-73 (2008) » link to article

*Non-Destructive Characterization and Alignment of Aerodynamically Focused Particle Beams using Single Particle Charge Detection
W. H. Benner*, M. J. Bogan*, U. Rohner, S. Boutet, B. Woods and M. Frank.
Journal of Aerosol Science, 39, 917-928 (2008) » link to article

*A Camera for Coherent Diffractive Imaging and Holography with a Soft-X-ray Free Electron Laser
S. Bajt, H. N. Chapman, E. Spiller, J. Alameda, B. W. Woods, M. Frank et al.
Applied Optics, 47, 1673-1683 (2008) » link to article

*Reagentless Detection of Mycobacteria tuberculosis H37Ra in Respiratory Effluents in Minutes
K. L. Adams, P. T. Steele, M. J. Bogan, N. M. Sadler, S. I. Martin, A. N. Martin et al.
Analytical Chemistry, 80, 5350-5357 (2008) » link to article

*Ultrafast Single-Shot Diffraction Imaging of Nanoscale Dynamics
A. Barty, S. Boutet, M. J. Bogan, S. Hau-Riege, S. Marchesini, K. Sokolowski-Tinten et al.
Nature Photonics, 2, 415-419 (2008) » link to article

2007

*Aerosol Sample Preparation Methods for X-ray Diffractive Imaging: Size-selected Sph erical Nanoparticles on Silicon Nitride Foils
M. J. Bogan, W. H. Benner, S. P. Hau-Riege, H. N. Chapman and M. Frank.
Journal of Aerosol Science, 38, 1119-1128 (2007) » link to article

*Femtosecond Time-Delay X-ray Holography
H. N. Chapman, S. P. Hau-Riege, M. J. Bogan, S. Bajt, A. Barty, S. Boutet et al.
Nature, 448, 676-679 (2007) » link to article

*Online Aerosol Mass Spectrometry of Single Micrometer-Sized Particles Containing Poly(ethylene glycol)
M. J. Bogan, E. Patton, A. Srivastava, S. Martin, D. P. Fergenson, P. T. Steele et al.
Rapid Communications in Mass Spectrometry, 21, 1214-1220 (2007) » link to article

*Modular Sampling and Analysis Techniques for the Real-Time Analysis of Human Breath
M. Frank, G. Farquar, K. Adams, M. J. Bogan, A. Martin, W. H. Benner et al.
in Sensors, (IEEE, 2007) » link to article

*Damage-Resistant Single-Pulse Optics for X-ray Free Electron Lasers
S. P. Hau-Riege, R. A. London, M. J. Bogan, H. N. Chapman and M. Bergh.
in Damage to VUV, EUV, and X-ray Optics.1 edn 65860T-65867 (SPIE, 2007) » link to article

 PULSE Research Nanoscale & Biomolecular Imaging • Publications • Scientific Staff