Publications

2022

Uhler C, Shivashankar GV
Machine learning approaches to single-cell data integration and translation
Proceedings of the IEEE. 2022; 110(5): 557-576. https://doi.org/10.1109/JPROC.2022.3166132
DORA PSI
Mühlethaler T, Milanos L, Ortega JA, Blum TB, Gioia D, Roy B, et al.
Rational design of a novel tubulin inhibitor with a unique mechanism of action
Angewandte Chemie International Edition. 2022. https://doi.org/10.1002/anie.202204052
DORA PSI
Zhang Q, Liu Y, Wu J, Zeng L, Wei J, Fu S, et al.
Structure and mechanism behind the inhibitory effect of water soluble metalloporphyrins on Aβ_1-42 aggregation
Inorganic Chemistry Frontiers. 2022; 9(7): 1520-1532. https://doi.org/10.1039/d1qi01434j
DORA PSI
Bavinton CE, Sternke-Hoffmann R, Yamashita T, Knipe PC, Hamilton AD, Luo J, et al.
Rationally designed helical peptidomimetics disrupt α-synuclein fibrillation
Chemical Communications. 2022; 58(33): 5132-5135. https://doi.org/10.1039/d2cc00212d
DORA PSI
Kepa MW, Tomizaki T, Sato Y, Ozerov D, Sekiguchi H, Yasuda N, et al.
Acoustic levitation and rotation of thin films and their application for room temperature protein crystallography
Scientific Reports. 2022; 12: 5349 (14 pp.). https://doi.org/10.1038/s41598-022-09167-z
DORA PSI
Tsujino S
On the brightness, transverse emittance, and transverse coherence of field emission beam
Journal of Vacuum Science and Technology B: Microelectronics and Nanometer Structures. 2022; 40(3): 030801 (12 pp.). https://doi.org/10.1116/6.0001776
DORA PSI
Fröjdh E, Abrahams JP, Andrä M, Barten R, Bergamaschi A, Brückner M, et al.
Electron detection with CdTe and GaAs sensors using the charge integrating hybrid pixel detector JUNGFRAU
Journal of Instrumentation. 2022; 17: C01020 (12 pp.). https://doi.org/10.1088/1748-0221/17/01/C01020
DORA PSI
Alpert PA, Boucly A, Yang S, Yang H, Kilchhofer K, Luo Z, et al.
Ice nucleation imaged with X-ray spectro-microscopy
Environmental Science: Atmospheres. 2022; 2(3): 335-351. https://doi.org/10.1039/D1EA00077B
DORA PSI
Mortelmans T, Kazazis D, Padeste C, Berger P, Li X, Ekinci Y
Poly(methyl methacrylate)-based nanofluidic device for rapid and multiplexed serological antibody detection of SARS-CoV-2
ACS Applied Nano Materials. 2022; 5(1): 517-526. https://doi.org/10.1021/acsanm.1c03309
DORA PSI
Collu G, Bierig T, Krebs A-S, Engilberge S, Varma N, Guixà-González R, et al.
Chimeric single α-helical domains as rigid fusion protein connections for protein nanotechnology and structural biology
Structure. 2022; 30(1): 95-106. https://doi.org/10.1016/j.str.2021.09.002
DORA PSI

2019 - 2021

Zhang L, Müller Gubler EA, Tai C-W, Kondracki Ł, Sommer H, Novák P, et al.
Elucidating the humidity-induced degradation of Ni-Rich layered cathodes for Li-ion batteries
ACS Applied Materials and Interfaces. 2021; 14(11): 13240-13249. https://doi.org/10.1021/acsami.1c23128
DORA PSI
Thakkar P, Guzenko VA, Lu P-H, Dunin-Borkowski RE, Abrahams JP, Tsujino S
Voltage-controlled three-electron-beam interference by a three-element Boersch phase shifter with top and bottom shielding electrodes
In: Purcell S, Mazellier J-P, eds. 2021 34th international vacuum nanoelectronics conference (IVNC). International conference on vacuum nanoelectronics (IVNC). sine loco: IEEE; 2021:21299961 (2 pp.). https://doi.org/10.1109/IVNC52431.2021.9600711
DORA PSI
Kepa MW, Tomizaki T, Tsujino S
Development of on-demand sample loading of ultrasound acoustic levitators by focused acoustic radiation
In: IEEE international ultrasonics symposium (IUS 2021). Danvers, MA: IEEE; 2021. https://doi.org/10.1109/IUS52206.2021.9593735
DORA PSI
Gomes CM, Hoyer W, Luo J
Editorial: the biochemistry of amyloids in neurodegenerative diseases, volume I
Frontiers in Neuroscience. 2021; 15: 819481 (2 pp.). https://doi.org/10.3389/fnins.2021.819481
DORA PSI
Romantini N, Alam S, Dobitz S, Spillmann M, De Foresta M, Schibli R, et al.
Exploring the signaling space of a GPCR using bivalent ligands with a rigid oligoproline backbone
Proceedings of the National Academy of Sciences of the United States of America PNAS. 2021; 118(48): e2108776118 (8 pp.). https://doi.org/10.1073/pnas.2108776118
DORA PSI
Latychevskaia T, Cassidy C, Shintake T
Bragg holography of nano-crystals
Ultramicroscopy. 2021; 230: 113376 (8 pp.). https://doi.org/10.1016/j.ultramic.2021.113376
DORA PSI
Venkatachalapathy S, Jokhun DS, Andhari M, Shivashankar GV
Single cell imaging-based chromatin biomarkers for tumor progression
Scientific Reports. 2021; 11(1): 23041 (14 pp.). https://doi.org/10.1038/s41598-021-02441-6
DORA PSI
Luo J, Wang H, Wu J, Romankov V, Daffé N, Dreiser J
Amyloid-beta–copper interaction studied by simultaneous nitrogen K and copper L_2,3_-edge soft X-ray absorption spectroscopy
iScience. 2021; 24(12): 103465 (11 pp.). https://doi.org/10.1016/j.isci.2021.103465
DORA PSI
Vergara HM, Pape C, Meechan KI, Zinchenko V, Genoud C, Wanner AA, et al.
Whole-body integration of gene expression and single-cell morphology
Cell. 2021; 184(18): 4819-4837. https://doi.org/10.1016/j.cell.2021.07.017
DORA PSI
Prasada Rao HBD, Sato T, Challa K, Fujita Y, Shinohara M, Shinohara A
Phosphorylation of luminal region of the SUN-domain protein Mps3 promotes nuclear envelope localization during meiosis
eLife. 2021; 10: e63119 (29 pp.). https://doi.org/10.7554/eLife.63119
DORA PSI
Cvjetinović Đ, Janković D, Milanović Z, Mirković M, Petrović J, Prijović Ž, et al.
¹⁷⁷Lu–labeled micro liposomes as a potential radiosynoviorthesis therapeutic agent
International Journal of Pharmaceutics. 2021; 608: 121106 (10 pp.). https://doi.org/10.1016/j.ijpharm.2021.121106
DORA PSI
Tran HT, Lucas MS, Ishikawa T, Shahmoradian SH, Padeste C
A compartmentalized neuronal cell-culture platform compatible with cryo-fixation by high-pressure freezing for ultrastructural imaging
Frontiers in Neuroscience. 2021; 15: 726763 (15 pp.). https://doi.org/10.3389/fnins.2021.726763
DORA PSI
Panneels V, Diaz A, Imsand C, Guizar-Sicairos M, Müller E, Bittermann AG, et al.
Imaging of retina cellular and subcellular structures using ptychographic hard X-ray tomography
Journal of Cell Science. 2021; 134(19): jcs258561. https://doi.org/10.1242/jcs.258561
DORA PSI
Wu J, Blum TB, Farrell DP, DiMaio F, Abrahams JP, Luo J
Cryo-electron microscopy imaging of Alzheimer's amyloid-beta 42 oligomer displayed on a functionally and structurally relevant scaffold
Angewandte Chemie International Edition. 2021; 60(34): 18680-18687. https://doi.org/10.1002/anie.202104497
DORA PSI
Martiel I, Beale JH, Karpik A, Huang C-Y, Vera L, Olieric N, et al.
Versatile microporous polymer-based supports for serial macromolecular crystallography
Acta Crystallographica Section D: Structural Biology. 2021; 77(9): 1153-1167. https://doi.org/10.1107/S2059798321007324
DORA PSI
Latychevskaia T
Three-dimensional structure from single two-dimensional diffraction intensity measurement
Physical Review Letters. 2021; 127(6): 063601 (6 pp.). https://doi.org/10.1103/PhysRevLett.127.063601
DORA PSI
Galaz-Montoya JG, Shahmoradian SH, Shen K, Frydman J, Chiu W
Cryo-electron tomography provides topological insights into mutant huntingtin exon 1 and polyQ aggregates
Communications Biology. 2021; 4(1): 849 (9 pp.). https://doi.org/10.1038/s42003-021-02360-2
DORA PSI
Latychevskaia T, Zan R, Morozov S, Novoselov KS
Symmetry of diffraction patterns of two-dimensional crystal structures
Ultramicroscopy. 2021; 228: 113336 (5 pp.). https://doi.org/10.1016/j.ultramic.2021.113336
DORA PSI
Latychevskaia T
Phase retrieval methods applied to coherent imaging
In: Hÿtch M, Hawkes PW, eds. Advances in imaging and electron physics. sine loco: Elsevier; 2021:1-62. https://doi.org/10.1016/bs.aiep.2021.04.001
DORA PSI
Yamamoto R, Hwang J, Ishikawa T, Kon T, Sale WS
Composition and function of ciliary inner-dynein-arm subunits studied in Chlamydomonas reinhardtii
Cytoskeleton. 2021; 78(3): 77-96. https://doi.org/10.1002/cm.21662
DORA PSI
Latychevskaia T
Wavefront modulation and beam shaping into arbitrary three-dimensional intensity distributions
Photonics. 2021; 8(6): 179 (10 pp.). https://doi.org/10.3390/photonics8060179
DORA PSI
Marelli E, Gazquez J, Poghosyan E, Müller E, Gawryluk DJ, Pomjakushina E, et al.
Correlation between oxygen vacancies and oxygen evolution reaction activity for a model electrode: PrBaCo₂O_5+δ
Angewandte Chemie International Edition. 2021; 60(26): 14609-14619. https://doi.org/10.1002/anie.202103151
DORA PSI
Blum TB, Housset D, Clabbers MTB, van Genderen E, Bacia-Verloop M, Zander U, et al.
Statistically correcting dynamical electron scattering improves the refinement of protein nanocrystals, including charge refinement of coordinated metals
Acta Crystallographica Section D: Structural Biology. 2021; 77: 75-85. https://doi.org/10.1107/S2059798320014540
DORA PSI
Kutomi O, Yamamoto R, Hirose K, Mizuno K, Nakagiri Y, Imai H, et al.
A dynein-associated photoreceptor protein prevents ciliary acclimation to blue light
Science Advances. 2021; 7(9): eabf3621 (12 pp.). https://doi.org/10.1126/sciadv.abf3621
DORA PSI
De Leo MG, Berger P, Mayer A
WIPI1 promotes fission of endosomal transport carriers and formation of autophagosomes through distinct mechanisms
Autophagy. 2021; 17(11): 3644-3670. https://doi.org/10.1080/15548627.2021.1886830
DORA PSI
Ghanbarzadeh Nodehi S, Shivashankar GV, Prost J, Mohammad-Rafiee F
The characteristics of nuclear membrane fluctuations in stem cells
Journal of the Royal Society Interface. 2021; 18(176): 20201010 (9 pp.). https://doi.org/10.1098/rsif.2020.1010
DORA PSI
Latychevskaia T, Haigh SJ, Novoselov KS
Holographic convergent electron beam diffraction (CBED) imaging of two-dimensional crystals
Surface Review and Letters. 2021; 28(8): 2140001 (15 pp.). https://doi.org/10.1142/S0218625X21400011
DORA PSI
Xiao X, Willemse J, Voskamp P, Li X, Prota AE, Lamers M, et al.
Ectopic positioning of the cell division plane is associated with single amino acid substitutions in the FtsZ-recruiting SsgB in Streptomyces
Open Biology. 2021; 11(2): 200409 (14 pp.). https://doi.org/10.1098/rsob.200409
DORA PSI
Yang KD, Belyaeva A, Venkatachalapathy S, Damodaran K, Katcoff A, Radhakrishnan A, et al.
Multi-domain translation between single-cell imaging and sequencing data using autoencoders
Nature Communications. 2021; 12(1): 31 (10 pp.). https://doi.org/10.1038/s41467-020-20249-2
DORA PSI
Belyaeva A, Cammarata L, Radhakrishnan A, Squires C, Yang KD, Shivashankar GV, et al.
Causal network models of SARS-CoV-2 expression and aging to identify candidates for drug repurposing
Nature Communications. 2021; 12(1): 1024 (13 pp.). https://doi.org/10.1038/s41467-021-21056-z
DORA PSI
Nitzsche A, Pietilä R, Love DT, Testini C, Ninchoji T, Smith RO, et al.
Paladin is a phosphoinositide phosphatase regulating endosomal VEGFR2 signalling and angiogenesis
EMBO Reports. 2021; 22(2): e5021 (16 pp.). https://doi.org/10.15252/embr.202050218
DORA PSI
Wu J, Yin X, Ye H, Gao Z, Li H
Structure relationship of metalloporphyrins in inhibiting the aggregation of hIAPP
International Journal of Biological Macromolecules. 2021; 167: 141-150. https://doi.org/10.1016/j.ijbiomac.2020.11.161
DORA PSI
Uhler C, Shivashankar GV
Mechanogenomic coupling of lung tissue stiffness, EMT and coronavirus pathogenicity
Current Opinion in Solid State and Materials Science. 2021; 25(1): 100874 (4 pp.). https://doi.org/10.1016/j.cossms.2020.100874
DORA PSI
Wang H, Lallemang M, Hermann B, Wallin C, Loch R, Blanc A, et al.
ATP impedes the inhibitory effect of Hsp90 on Aβ₄₀ fibrillation
Journal of Molecular Biology. 2021; 433(2): 166717 (16 pp.). https://doi.org/10.1016/j.jmb.2020.11.016
DORA PSI

Tran HT, Tsai EHR, Lewis AJ, Moors T, Bol JGJM, Rostami I, et al.
Alterations in sub-axonal architecture between normal aging and Parkinson's diseased human brains using label-free cryogenic X-ray nanotomography
Frontiers in Neuroscience. 2020; 14: 570019 (22 pp.). https://doi.org/10.3389/fnins.2020.570019
DORA PSI
Bierig T, Collu G, Blanc A, Poghosyan E, Benoit RM
Design, expression, purification, and characterization of a YFP-tagged 2019-n CoV spike receptor-binding domain construct
Frontiers in Bioengineering and Biotechnology. 2020; 8: 618615 (10 pp.). https://doi.org/10.3389/fbioe.2020.618615
DORA PSI
Rowthu S, Grundler PV, Müller E, Ritter S
Pt catalytic effects on the corrosion and hydrogen chemisorption properties of Zircaloy-2
Journal of Nuclear Materials. 2020; 544: 152716 (15 pp.). https://doi.org/10.1016/j.jnucmat.2020.152716
DORA PSI
Merg AD, Touponse G, van Genderen E, Blum TB, Zuo X, Bazrafshan A, et al.
Shape-shifting peptide nanomaterials: surface asymmetry enables pH-dependent formation and interconversion of collagen tubes and sheets
Journal of the American Chemical Society. 2020; 142(47): 19956-19968. https://doi.org/10.1021/jacs.0c08174
DORA PSI
Wu J, Cao C, Loch RA, Tiiman A, Luo J
Single-molecule studies of amyloid proteins: from biophysical properties to diagnostic perspectives
Quarterly Reviews of Biophysics. 2020; 53: e12 (22 pp.). https://doi.org/10.1017/S0033583520000086
DORA PSI
Avsar SY, Kapinos LE, Schoenenberger C-A, Schertler GFX, Mühle J, Meger B, et al.
Immobilization of arrestin-3 on different biosensor platforms for evaluating GPCR binding
Physical Chemistry Chemical Physics. 2020; 22(41): 24086-24096. https://doi.org/10.1039/d0cp01464h
DORA PSI
Rösner B, Finizio S, Koch F, Döring F, Guzenko VA, Langer M, et al.
Soft x-ray microscopy with 7 nm resolution
Optica. 2020; 7(11): 1602-1608. https://doi.org/10.1364/OPTICA.399885
DORA PSI
Thakkar P, Guzenko V, Abrahams JP, Tsujino S, Lu PH, Dunin-Borkowski RE
Demonstration of the voltage-controlled three-beam interference of high-energy coherent electron beam
In: 33rd international vacuum nanoelectronics conference (IVNC) July 6-7, 2020. 2020 33rd international vacuum nanoelectronics conference (IVNC). Piscataway, New Jersey, United States: Institute of Electrical and Electronics Engineers; 2020:9203341 (2 pp.). https://doi.org/10.1109/IVNC49440.2020.9203341
DORA PSI
Grzmil M, Qin Y, Schleuniger C, Frank S, Imobersteg S, Blanc A, et al.
Pharmacological inhibition of mTORC1 increases CCKBR-specific tumor uptake of radiolabeled minigastrin analogue [¹⁷⁷Lu]Lu-PP-F11N
Theranostics. 2020; 10(24): 10861-10873. https://doi.org/10.7150/thno.45440
DORA PSI
Thakkar P, Guzenko VA, Lu P-H, Dunin-Borkowski RE, Abrahams JP, Tsujino S
Fabrication of low aspect ratio three-element Boersch phase shifters for voltage-controlled three electron beam interference
Journal of Applied Physics. 2020; 128(13): 134502 (13 pp.). https://doi.org/10.1063/5.0020383
DORA PSI
Rezvani Alanagh H, Rostami I, Taleb M, Gao X, Zhang Y, Khattak AM, et al.
Covalent organic framework membrane for size selective release of small molecules and peptide: in vitro
Journal of Materials Chemistry B. 2020; 8(35): 7899-7903. https://doi.org/10.1039/d0tb01416h
DORA PSI
Xiao X, Elsayed SS, Wu C, van der Heul HU, Metsä-Ketelä M, Du C, et al.
Functional and structural insights into a novel promiscuous ketoreductase of the lugdunomycin biosynthetic pathway
ACS Chemical Biology. 2020; 15(9): 2529-2538. https://doi.org/10.1021/acschembio.0c00564
DORA PSI
Peacock H, Henriques ST, Benfield AH, Elliott AG, Luo J, Luccarelli J, et al.
Antimicrobial peptide mimetics based on a diphenylacetylene scaffold: synthesis, conformational analysis, and activity
ChemMedChem. 2020; 15(20): 1932-1939. https://doi.org/10.1002/cmdc.202000474
DORA PSI
Poghosyan E, Iacovache I, Faltova L, Leitner A, Yang P, Diener DR, et al.
The structure and symmetry of the radial spoke protein complex in Chlamydomonas flagella
Journal of Cell Science. 2020; 133(16): jcs245233 (9 pp.). https://doi.org/10.1242/jcs.245233
DORA PSI
van Schayck JP, van Genderen E, Maddox E, Roussel L, Boulanger H, Fröjdh E, et al.
Sub-pixel electron detection using a convolutional neural network
Ultramicroscopy. 2020; 218: 113091 (10 pp.). https://doi.org/10.1016/j.ultramic.2020.113091
DORA PSI
Latychevskaia T
Holography and coherent diffraction imaging with low-(30-250 eV) and high-(80-300 keV) energy electrons: history, principles, and recent trends
Materials. 2020; 13(14): 3089 (36 pp.). https://doi.org/10.3390/ma13143089
DORA PSI
Matz JM, Drepper B, Blum TB, van Genderen E, Burrell A, Martin P, et al.
A lipocalin mediates unidirectional heme biomineralization in malaria parasites
Proceedings of the National Academy of Sciences of the United States of America PNAS. 2020; 117(28): 16546-16556. https://doi.org/10.1073/pnas.2001153117
DORA PSI
Spillmann M, Thurner L, Romantini N, Zimmermann M, Meger B, Behe M, et al.
New insights into arrestin recruitment to GPCRs
International Journal of Molecular Sciences. 2020; 21(14): 4949 (14 pp.). https://doi.org/10.3390/ijms21144949
DORA PSI
Skopintsev P, Ehrenberg D, Weinert T, James D, Kar RK, Johnson PJM, et al.
Femtosecond-to-millisecond structural changes in a light-driven sodium pump
Nature. 2020; 583: 314-318. https://doi.org/10.1038/s41586-020-2307-8
DORA PSI
Miljus T, Sykes DA, Harwood CR, Vuckovic Z, Veprintsev DB
GPCR solubilization and quality control
In: Perez C, Maier T, eds. Expression, purification, and structural biology of membrane proteins. Methods in molecular biology. New York: Humana; 2020:105-127. https://doi.org/10.1007/978-1-0716-0373-4_8
DORA PSI
Holler M, Ihli J, Tsai EHR, Nudelman F, Verezhak M, van de Berg WDJ, et al.
A lathe system for micrometre-sized cylindrical sample preparation at room and cryogenic temperatures
Journal of Synchrotron Radiation. 2020; 27(2): 472-476. https://doi.org/10.1107/S1600577519017028
DORA PSI

Latychevskaia T
Phase retrieval for digital holography
In: Digital holography and three-dimensional imaging 2019. Digital holography and three-dimensional imaging. Washington D.C.: Optical Society of America (OSA); 2019:M5B.1 (2 pp.). https://doi.org/10.1364/DH.2019.M5B.1
DORA PSI
Woerle J, Šimonka V, Müller E, Hössinger A, Sigg H, Selberherr S, et al.
Surface morphology of 4H-SiC after thermal oxidation
In: Gammon PM, Shah VA, McMahon RA, Jennings MR, Vavasour O, Padfield F, et al., eds. Vol. 963. Materials science forum. sine loco: Trans Tech Publications Ltd.; 2019:180-183. https://doi.org/10.4028/www.scientific.net/MSF.963.180
DORA PSI
Blum TB, Filippidou S, Fatton M, Junier P, Abrahams JP
The wild-type flagellar filament of the Firmicute Kurthia at 2.8 Å resolution in vivo
Scientific Reports. 2019; 9(1): 14948 (8 pp.). https://doi.org/10.1038/s41598-019-51440-1
DORA PSI
Wärmländer SKTS, Österlund N, Wallin C, Wu J, Luo J, Tiiman A, et al.
Metal binding to the amyloid-β peptides in the presence of biomembranes: potential mechanisms of cell toxicity
Journal of Biological Inorganic Chemistry. 2019; 24(8): 1189-1196. https://doi.org/10.1007/s00775-019-01723-9
DORA PSI
Xie Y, Mansouri M, Rizk A, Berger P
Regulation of VEGFR2 trafficking and signaling by Rab GTPase-activating proteins
Scientific Reports. 2019; 9(1): 13342 (12 pp.). https://doi.org/10.1038/s41598-019-49646-4
DORA PSI
Latychevskaia T
Iterative phase retrieval for digital holography: tutorial
Journal of the Optical Society of America A: Optics and Image Science, and Vision. 2019; 36(12): D31-D40. https://doi.org/10.1364/JOSAA.36.000D31
DORA PSI
Heidler J, Pantelic R, Wennmacher JTC, Zaubitzer C, Fecteau-Lefebvre A, Goldie KN, et al.
Design guidelines for an electron diffractometer for structural chemistry and structural biology
Acta Crystallographica Section D: Structural Biology. 2019; 75(5): 458-466. https://doi.org/10.1107/S2059798319003942
DORA PSI
Shahmoradian SH, Lewis AJ, Genoud C, Hench J, Moors T, Navarro PP, et al.
Lewy pathology in Parkinson’s disease consists of crowded organelles and lipid membranes
Nature Neuroscience. 2019; 22(7): 1099-1109. https://doi.org/10.1038/s41593-019-0423-2
DORA PSI
Merg AD, Touponse G, van Genderen E, Zuo X, Bazrafshan A, Blum T, et al.
2D crystal engineering of nanosheets assembled from helical peptide building blocks
Angewandte Chemie International Edition. 2019; 58(38): 13507-13512. https://doi.org/10.1002/anie.201906214
DORA PSI
Gemmi M, Mugnaioli E, Gorelik TE, Kolb U, Palatinus L, Boullay P, et al.
3D electron diffraction: the nanocrystallography revolution
ACS Central Science. 2019; 5(8): 1315-1329. https://doi.org/10.1021/acscentsci.9b00394
DORA PSI
Rostami I, Alanagh HR, Hu Z, Shahmoradian SH
Breakthroughs in medicine and bioimaging with up-conversion nanoparticles
International Journal of Nanomedicine. 2019; 14: 7759-7780. https://doi.org/10.2147/IJN.S221433
DORA PSI
Merg AD, van Genderen E, Bazrafshan A, Su H, Zuo X, Touponse G, et al.
Seeded heteroepitaxial growth of crystallizable collagen triple helices: engineering multifunctional two-dimensional core-shell nanostructures
Journal of the American Chemical Society. 2019; 141(51): 20107-20117. https://doi.org/10.1021/jacs.9b09335
DORA PSI
Clabbers MTB, Gruene T, van Genderen E, Abrahams JP
Reducing dynamical electron scattering reveals hydrogen atoms
Acta Crystallographica Section A: Foundations and Advances. 2019; 75(1): 82-93. https://doi.org/10.1107/S2053273318013918
DORA PSI
Zhu X, Poghosyan E, Rezabkova L, Mehall B, Sakakibara H, Hirono M, et al.
The roles of a flagellar HSP40 ensuring rhythmic beating
Molecular Biology of the Cell. 2019; 30(2): 228-241. https://doi.org/10.1091/mbc.E18-01-0047
DORA PSI
Krebs A-S, Bierig T, Collu G, Benoit RM
Seamless insert-plasmid assembly at sub-terminal homologous sequences
Plasmid. 2019; 106: 102445 (9 pp.). https://doi.org/10.1016/j.plasmid.2019.102445
DORA PSI
Guerrero-Ferreira RC, Hupfeld M, Nazarov S, Taylor NMI, Shneider MM, Obbineni JM, et al.
Structure and transformation of bacteriophage A511 baseplate and tail upon infection of Listeria cells
EMBO Journal. 2019; 38(3): e99455 (20 pp.). https://doi.org/10.15252/embj.201899455
DORA PSI
Lewis AJ, Genoud C, Pont M, van de Berg WDJ, Frank S, Stahlberg H, et al.
Imaging of post-mortem human brain tissue using electron and X-ray microscopy
Current Opinion in Structural Biology. 2019; 58: 138-148. https://doi.org/10.1016/j.sbi.2019.06.003
DORA PSI
Latychevskaia T, Abrahams JP
Inelastic scattering and solvent scattering reduce dynamical diffraction in biological crystals
Acta Crystallographica Section B: Structural Science, Crystal Engineering and Materials. 2019; 75: 523-531. https://doi.org/10.1107/S2052520619009661
DORA PSI
Kashima K, Fujisaki T, Serrano-Luginbühl S, Kissner R, Janošević Ležaić A, Bajuk-Bogdanović D, et al.
Effect of template type on the Trametes versicolor laccase-catalyzed oligomerization of the aniline dimer p-aminodiphenylamine (PADPA)
ACS Omega. 2019; 4(2): 2931-2947. https://doi.org/10.1021/acsomega.8b03441
DORA PSI
Holler M, Odstrcil M, Guizar-Sicairos M, Lebugle M, Müller E, Finizio S, et al.
Three-dimensional imaging of integrated circuits with macro- to nanoscale zoom
Nature Electronics. 2019; 2: 464-470. https://doi.org/10.1038/s41928-019-0309-z
DORA PSI
Kriegner D, Springholz G, Richter C, Pilet N, Müller E, Capron M, et al.
Ferroelectric self-poling in GeTe films and crystals
Crystals. 2019; 9(7): 335 (15 pp.). https://doi.org/10.3390/cryst9070335
DORA PSI
Panatala R, Barbato S, Kozai T, Luo J, Kapinos LE, Lim RYH
Nuclear pore membrane proteins self-assemble into nanopores
Biochemistry. 2019; 58(6): 484-488. https://doi.org/10.1021/acs.biochem.8b01179
DORA PSI
Moradi M, Opara NL, Tulli LG, Wäckerlin C, Dalgarno SJ, Teat SJ, et al.
Supramolecular architectures of molecularly thin yet robust free-standing layers
Science Advances. 2019; 5(2): eaav4489 (7 pp.). https://doi.org/10.1126/sciadv.aav4489
DORA PSI
Tomandl I, Vacík J, Köster U, Viererbl L, Maugeri EA, Heinitz S, et al.
Measurement of the ⁷Be(n, p) cross section at thermal energy
Physical Review C: Nuclear Physics. 2019; 99(1): 014612 (6 pp.). https://doi.org/10.1103/PhysRevC.99.014612
DORA PSI
Haider RS, Wilhelm F, Rizk A, Mutt E, Deupi X, Peterhans C, et al.
Arrestin-1 engineering facilitates complex stabilization with native rhodopsin
Scientific Reports. 2019; 9(1): 439 (13 pp.). https://doi.org/10.1038/s41598-018-36881-4
DORA PSI
Li T, Krumeich F, Ihli J, Ma Z, Ishikawa T, Pinar AB, et al.
Heavy atom labeling enables silanol defect visualization in silicalite-1 crystals
Chemical Communications. 2019; 55(4): 482-485. https://doi.org/10.1039/c8cc07912a
DORA PSI
Österlund N, Luo J, Wärmländer SKTS, Gräslund A
Membrane-mimetic systems for biophysical studies of the amyloid-β peptide
Biochimica et Biophysica Acta: Proteins and Proteomics. 2019; 1867: 492-501. https://doi.org/10.1016/j.bbapap.2018.11.005
DORA PSI

2016 - 2018

Botulinum Neurotoxin Diversity from a Gene-Centered View Benoit R
Toxins 10, 310 (2018).
DOI: 10.3390/toxins10080310
Cerebral Corpora amylacea are dense membranous labyrinths containing structurally preserved cell organelles Navarro Paula P, Genoud C, Castaño-Díez D, Graff-Meyer A, Lewis Amanda J, de Gier Y, Lauer Matthias E, Britschgi M, Bohrmann B, Frank S, Hench J, Schweighauser G, Rozemuller Annemieke JM, van de Berg Wilma DJ, Stahlberg H, Shahmoradian Sarah H
Scientific Reports 8, 18046 (2018).
DOI: 10.1038/s41598-018-36223-4
Development of Smart Optical Gels with Highly Magnetically Responsive Bicelles Isabettini S, Stucki S, Massabni S, Baumgartner ME, Reckey PQ, Kohlbrecher J, Ishikawa T, Windhab Erich J, Fischer P, Kuster S
ACS APPLIED MATERIALS & INTERFACES 10, 8926 (2018).
DOI: 10.1021/acsami.7b17134
Electron crystallography with the EIGER detector Tinti G, Fröjdh E, van Genderen E, Gruene T, Schmitt B, de Winter MDA, Weckhuysen BM, Abrahams J
IUCRJ 5, 190 (2018).
DOI: 10.1107/S2052252518000945
Frontispiece: Characterization at the Level of Individual Crystals: Single-Crystal MFI Type Zeolite Grains Gruene T, Li T, van Genderen E, Pinar Ana B, van Bokhoven JA
CHEMISTRY - A EUROPEAN JOURNAL 24, 2384 (2018).
DOI: 10.1002/chem.201881065

Baculovirus-based genome editing in primary cells Mansouri M, Ehsaei Z, Taylor V, Berger P
PLASMID 90, 5 (2017).
DOI: 10.1016/j.plasmid.2017.01.003
Characterization at the level of individual crystals: single crystal MFI type zeolite grains Gruene T, Li T, van Genderen E, Pinar AB, van Bokhoven JA
CHEMISTRY - A EUROPEAN JOURNAL 24, 2384 (2017).
DOI: 10.1002/chem.201704213
Comprehensive Analysis of the Role of Arrestin Residues in Receptor Binding Haider Raphael S, Rizk A, Schertler G, Ostermaier M
Springer International Publishing -, 83 (2017).
DOI: 10.1007/978-3-319-57553-7_7
Crystal structure of the BoNT/A2 receptor-binding domain in complex with the luminal domain of its neuronal receptor SV2C Benoit RM, Schaerer MA, Wieser MM, Li X, Frey D, Kammerer RA
Scientific Reports 7, 43588 (2017).
DOI: 10.1038/srep43588
Mastering the magnetic susceptibility of magnetically responsive bicelles with 3?-amino-5-cholestene and complexed lanthanide ions Isabettini S, Liebi M, Kohlbrecher J, Ishikawa T, Fischer P, Windhab Erich J, Walde P, Kuster S
PHYSICAL CHEMISTRY CHEMICAL PHYSICS 19, 10820 (2017).
DOI: 10.1039/C7CP01025G
Methods for Generating Highly Magnetically Responsive Lanthanide-Chelating Phospholipid Polymolecular Assemblies Isabettini S, Baumgartner Mirjam E, Reckey Pernille Q, Kohlbrecher J, Ishikawa T, Fischer P, Windhab Erich J, Kuster S
LANGMUIR 33, 6363 (2017).
DOI: 10.1021/acs.langmuir.7b00725
Molecular engineering of lanthanide ion chelating phospholipids generating assemblies with a switched magnetic susceptibility Isabettini S, Massabni S, Hodzic A, Durovic D, Kohlbrecher J, Ishikawa T, Fischer P, Windhab Erich J, Walde P, Kuster S
Phys. Chem. Chem. Phys. 19, 20991 (2017).
DOI: 10.1039/C7CP03994H
OMNY PIN - A versatile sample holder for tomographic measurements at room and cryogenic temperatures Holler M, Raabe J, Wepf R, Shahmoradian SH, Diaz A, Sarafimov B, Lachat T, Walther H, Vitins M
REVIEW OF SCIENTIFIC INSTRUMENTS 88, 113701 (2017).
DOI: 10.1063/1.4996092
Protein structure determination by electron diffraction using a single three-dimensional nanocrystal Clabbers MTB, van Genderen E, Wan W, Wiegers EL, Gruene T, Abrahams JP
Acta Crystallographica Section D Structural Biology 73, 738 (2017).
DOI: 10.1107/S2059798317010348
Three-Dimensional Imaging of Biological Tissue by Cryo X-Ray Ptychography Shahmoradian SH, Tsai EHR, Diaz A, Guizar-Sicairos M, Raabe J, Spycher L, Britschgi M, Ruf A, Stahlberg H, Holler M
Scientific Reports 7, 6291 (2017).
DOI: 10.1038/s41598-017-05587-4

A simple and fast approach for missing-wedge invariant classification of subtomograms extracted from filamentous structures Obbineni J, Yamamoto R, Ishikawa T
JOURNAL OF STRUCTURAL BIOLOGY , (2016).
DOI: 10.1016/j.jsb.2016.08.003
Ab initio structure determination of nanocrystals of organic pharmaceutical compounds by electron diffraction at room temperature using a Timepix quantum area direct electron detector van Genderen E, Clabbers MTB, Das PP, Stewart A, Nederlof I, Barentsen KC, Portillo Q, Pannu NS, Nicolopoulos S, Gruene T, Abrahams JP
Acta Crystallographica Section A Foundations and Advances 72, 236 (2016).
DOI: 10.1107/S2053273315022500
Addendum to Three-dimensional mass density mapping of cellular ultrastructure by ptychographic X-ray nanotomography [J. Struct. Biol. 192 (2015) 461-469] Diaz A, Malkova B, Holler M, Guizar-Sicairos M, Lima E, Panneels V, Pigino G, Bittermann A, Wettstein L, Tomizaki T, Bunk O, Schertler G, Ishikawa T, Wepf R, Menzel A
JOURNAL OF STRUCTURAL BIOLOGY 193, 83 (2016).
DOI: 10.1016/j.jsb.2015.12.003
Biochemie und Molekularbiologie Christen P, Jaussi R, Benoit R
Springer Verlag Berlin Heidelberg , (2016).
DOI: 10.1007/978-3-662-46430-4_1
Characterization of Mn(II) ion binding to the amyloid-? peptide in Alzheimer?s disease Wallin C, Kulkarni Yashraj S, Abelein A, Jarvet J, Liao Q, Strodel B, Olsson L, Luo J, Abrahams J, Sholts Sabrina B, Roos Per M, Kamerlin Shina CL, Gräslund A, Wärmländer Sebastian KTS
JOURNAL OF TRACE ELEMENTS IN MEDICINE AND BIOLOGY , (2016).
DOI: 10.1016/j.jtemb.2016.03.009
Control of the structural landscape and neuronal proteotoxicity of mutant Huntingtin by domains flanking the polyQ tract Shen K, Calamini B, Fauerbach J, Ma B, Shahmoradian S, Serrano Lachapel I, Chiu W, Lo D, Frydman J
ELIFE 5, (2016).
DOI: 10.7554/eLife.18065
Cross-interactions between the Alzheimer Disease Amyloid-? Peptide and Other Amyloid Proteins: A Further Aspect of the Amyloid Cascade Hypothesis Luo J, Wärmländer Sebastian KTS, Gräslund A, Abrahams J
JOURNAL OF BIOLOGICAL CHEMISTRY 291, 16485 (2016).
DOI: 10.1074/jbc.R116.714576
Functional map of arrestin binding to phosphorylated opsin, with and without agonist Peterhans C, Lally Ciara CM, Ostermaier Martin K, Sommer Martha E, Standfuss J
Scientific Reports 6, 28686 (2016).
DOI: 10.1038/srep28686
Functional map of arrestin binding to phosphorylated opsin, with and without agonist (vol 6, 28686, 2016) Peterhans Christian, Lally Ciara C M, Ostermaier Martin K, Sommer Martha E, Standfuss Jorg
Scientific Reports 6, 30224 (2016).
DOI: 10.1038/srep30224
Highly efficient baculovirus-mediated multigene delivery in primary cells Mansouri M, Bellon-Echeverria I, Rizk A, Ehsaei Z, Cianciolo Cosentino C, Silva Catarina S, Xie Y, Boyce Frederick M, Davis MWayne, Neuhauss Stephan CF, Taylor V, Ballmer-Hofer K, Berger I, Berger P
NATURE COMMUNICATIONS 7, 11529 (2016).
DOI: 10.1038/ncomms11529
Lattice filter for processing image data of three-dimensional protein nanocrystals van Genderen E, Li YW, Nederlof I, Abrahams JP
ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY 72, 34 (2016).
DOI: 10.1107/S205979831502149X
Modern X-ray analysis on single crystals - a practical guide Gruene T
Crystallography Reviews 22, 287 (2016).
DOI: 10.1080/0889311X.2016.1237508
Reciprocal Molecular Interactions between the A? Peptide Linked to Alzheimer?s Disease and Insulin Linked to Diabetes Mellitus Type II Luo J, Wärmländer Sebastian KTS, Gräslund A, Abrahams J
ACS Chemical Neuroscience 7, 269 (2016).
DOI: 10.1021/acschemneuro.5b00325
Seamless Insert-Plasmid Assembly at High Efficiency and Low Cost Benoit RM, Ostermeier C, Geiser M, Li JSZ, Widmer H, Auer M
PLOS ONE 11, e0153158 (2016).
DOI: 10.1371/journal.pone.0153158
Structural basis for misregulation of kinesin KIF21A autoinhibition by CFEOM1 disease mutations Bianchi S, van Riel Wilhelmina E, Kraatz Sebastian HW, Olieric N, Frey D, Katrukha Eugene A, Jaussi R, Missimer J, Grigoriev I, Olieric V, Benoit Roger M, Steinmetz Michel O, Akhmanova A, Kammerer Richard A
Scientific Reports 6, 30668 (2016).
DOI: 10.1038/srep30668
TRiC subunits enhance BDNF axonal transport and rescue striatal atrophy in Huntington?s disease Zhao X, Chen X, Han E, Hu Y, Paik P, Ding Z, Overman J, Lau Alice L, Shahmoradian SH, Chiu W, Thompson Leslie M, Wu C, Mobley William C
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 113, E5655 (2016).
DOI: 10.1073/pnas.1603020113
Tailoring Bicelle Morphology and Thermal Stability with Lanthanide-Chelating Cholesterol Conjugates Isabettini S, Liebi M, Kohlbrecher J, Ishikawa T, Windhab Erich J, Fischer P, Walde P, Kuster S
LANGMUIR 32 (35), 9005 (2016).
DOI: 10.1021/acs.langmuir.6b01968

2011 - 2015

A posteriori correction of camera characteristics from large image data sets Afanasyev P, Ravelli Raimond BG, Matadeen R, De Carlo S, van Duinen G, Alewijnse B, Peters Peter J, Abrahams J, Portugal Rodrigo V, Schatz M, van Heel M
Scientific Reports 5, 10317 (2015).
DOI: 10.1038/srep10317
Bilayer Properties of 1,3-Diamidophospholipids Weinberger A, Tanasescu R, Stefaniu C, Fedotenko lllya A, Favarger F, Ishikawa T, Brezesinski G, Marques Carlos M, Zumbuehl A
LANGMUIR 31, 1879 (2015).
DOI: 10.1021/la5041745
Cryo-electron tomography of motile cilia and flagella Ishikawa T
Cilia 4, 3 (2015).
DOI: 10.1186/s13630-014-0012-7
Electron crystallography of 3D nano-crystals Clabbers Max TB, van Genderen E, Nederlof I, Li Y, Abrahams J
Acta Crystallographica Section A Foundations and Advances 71, s405 (2015).
DOI: 10.1107/S2053273315093985
Electron diffraction and imaging of 3D nanocrystals of pharmaceuticals, peptides and proteins Abrahams J, van Genderen E, Nederlof I, Clabbers M, Li Y
Acta Crystallographica Section A Foundations and Advances 71, s103 (2015).
DOI: 10.1107/S2053273315098496
RAFT synthesis of poly(vinylpyrrolidone) amine and preparation of a water-soluble C 60 -PVP conjugate Aroua S, Tiu Elisha Gabrielle V, Ayer M, Ishikawa T, Yamakoshi Y
Polym. Chem. 6, 2616 (2015).
DOI: 10.1039/C4PY01333F
Structure of the BoNT/A1 - receptor complex Benoit Roger M, Frey D, Wieser Mara M, Thieltges Katherine M, Jaussi R, Capitani G, Kammerer Richard A
TOXICON 107, 25 (2015).
DOI: 10.1016/j.toxicon.2015.08.002
Subcellular object quantification with Squassh3C and SquasshAnalyst Rizk A, Mansouri M, Ballmer-Hofer K, Berger P
BIOTECHNIQUES 59, (2015).
DOI: 10.2144/000114352
Synthesis of Single Crystal Nanoreactor Materials with Multiple Catalytic Functions by Incipient Wetness Impregnation and Ion Exchange Fodor D, Ishikawa T, Krumeich F, van Bokhoven Jeroen A
ADVANCED MATERIALS 27, 1919 (2015).
DOI: 10.1002/adma.201404628
Three-dimensional mass density mapping of cellular ultrastructure by ptychographic X-ray nanotomography Diaz A, Malkova B, Holler M, Guizar-Sicairos M, Lima E, Panneels V, Pigino G, Bittermann A, Wettstein L, Tomizaki T, Bunk O, Schertler G, Ishikawa T, Wepf R, Menzel A
JOURNAL OF STRUCTURAL BIOLOGY 192, 461 (2015).
DOI: 10.1016/j.jsb.2015.10.008
alpha- and beta-Tubulin Lattice of the Axonemal Microtubule Doublet and Binding Proteins Revealed by Single Particle Cryo-Electron Microscopy and Tomography Maheshwari A, Obbineni J, Bui K, Shibata K, Toyoshima Yoko Y, Ishikawa T
STRUCTURE 23, 1584 (2015).
DOI: 10.1016/j.str.2015.06.017

Alzheimer Peptides Aggregate into Transient Nanoglobules That Nucleate Fibrils Luo J, Wärmländer Sebastian KTS, Gräslund A, Abrahams J
BIOCHEMISTRY 53, 6302 (2014).
DOI: 10.1021/bi5003579
ChemInform Abstract: Cyclic Peptides as Inhibitors of Amyloid Fibrillation Luo J, Abrahams J
ChemInform 45, no (2014).
DOI: 10.1002/chin.201422265
Cyclic Peptides as Inhibitors of Amyloid Fibrillation Luo J, Abrahams J
CHEMISTRY - A EUROPEAN JOURNAL 20, 2410 (2014).
DOI: 10.1002/chem.201304253
Endogenous Polyamines Reduce the Toxicity of Soluble A? Peptide Aggregates Associated with Alzheimer?s Disease Luo J, Mohammed I, Wärmländer Sebastian KTS, Hiruma Y, Gräslund A, Abrahams J
BIOMACROMOLECULES 15, 1985 (2014).
DOI: 10.1021/bm401874j
Functional map of arrestin-1 at single amino acid resolution Ostermaier Martin K, Peterhans Christian, Jaussi Rolf, Deupi Xavier, Standfuss Joerg
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 111, 1825-1830 (2014).
DOI: 10.1073/pnas.1319402111
Magnetically Enhanced Bicelles Delivering Switchable Anisotropy in Optical Gels Liebi M, Kuster S, Kohlbrecher J, Ishikawa T, Fischer P, Walde P, Windhab EJ
ACS APPLIED MATERIALS & INTERFACES 6, 1100-1105 (2014).
DOI: 10.1021/am4046469
Molecular mechanism of phosphorylation-dependent arrestin activation Ostermaier M, Schertler G, Standfuss J
CURRENT OPINION IN STRUCTURAL BIOLOGY 29, 143 (2014).
DOI: 10.1016/j.sbi.2014.07.006
NRP1 Presented in trans to the Endothelium Arrests VEGFR2 Endocytosis, Preventing Angiogenic Signaling and Tumor Initiation Koch S, van Meeteren Laurens A, Morin E, Testini C, Weström S, Björkelund H, Le Jan S, Adler J, Berger P, Claesson-Welsh L
DEVELOPMENTAL CELL 28, 633 (2014).
DOI: 10.1016/j.devcel.2014.02.010
Non-chaperone Proteins Can Inhibit Aggregation and Cytotoxicity of Alzheimer Amyloid ? Peptide Luo J, Wärmländer Sebastian KTS, Gräslund A, Abrahams J
JOURNAL OF BIOLOGICAL CHEMISTRY 289, 27766 (2014).
DOI: 10.1074/jbc.M114.574947
Preparation of Primary Neurons for Visualizing Neurites in a Frozen-hydrated State Using Cryo-Electron Tomography Shahmoradian SH, Galiano Mauricio R, Wu C, Chen S, Rasband Matthew N, Mobley William C, Chiu W
Journal of Visualized Experiments -, - (2014).
DOI: 10.3791/50783
Protein tagging reveals new insights into signaling in flagella Ishikawa T
The Journal of Cell Biology 204, 631 (2014).
DOI: 10.1083/jcb.201401142
Segmentation and quantification of subcellular structures in fluorescence microscopy images using Squassh Rizk A, Paul G, Incardona P, Bugarski M, Mansouri M, Niemann A, Ziegler U, Berger P, Sbalzarini I
NATURE PROTOCOLS 9, 586 (2014).
DOI: 10.1038/nprot.2014.037
Strategies for multigene expression in eukaryotic cells Mansouri M, Berger P
PLASMID 75, 12 (2014).
DOI: 10.1016/j.plasmid.2014.07.001
Structural basis for recognition of synaptic vesicle protein 2C by botulinum neurotoxin A Benoit Roger M, Frey Daniel, Hilbert Manuel, Kevenaar Josta T, Wieser Mara M, Stirnimann Christian U, McMillan David, Ceska Tom, Lebon Florence, Jaussi Rolf, Steinmetz Michel O, Schertler Gebhard F X, Hoogenraad Casper C, Capitani Guido, Kammerer Richard A
NATURE 505, 108-+ (2014).
DOI: 10.1038/nature12732
Structure of dimeric axonemal dynein in cilia suggests an alternative mechanism of force generation Ueno H, Bui K, Ishikawa T, Imai Y, Yamaguchi T, Ishikawa T
Cytoskeleton 71, 412 (2014).
DOI: 10.1002/cm.21180
The A- peptide forms non-amyloid fibrils in the presence of carbon nanotubes Luo J, Waermlaender Sebastian KTS, Yu C, Muhammad K, Graeslund A, Abrahams JP
NANOSCALE 6, 6720 (2014).
DOI: 10.1039/c4nr00291a
The hairpin conformation of the amyloid ? peptide is an important structural motif along the aggregation pathway Abelein A, Abrahams J, Danielsson J, Gräslund A, Jarvet J, Luo J, Tiiman A, Wärmländer Sebastian KTS
JBIC JOURNAL OF BIOLOGICAL INORGANIC CHEMISTRY 19, 623 (2014).
DOI: 10.1007/s00775-014-1131-8

A Medipix quantum area detector allows rotation electron diffraction data collection from submicrometre three-dimensional protein crystals Nederlof I, van Genderen E, Li Y, Abrahams J
ACTA CRYSTALLOGRAPHICA SECTION D - BIOLOGICAL CRYSTALLOGRAPHY 69, 1223 (2013).
DOI: 10.1107/S0907444913009700
AAscan, PCRdesign and MutantChecker: A Suite of Programs for Primer Design and Sequence Analysis for High-Throughput Scanning Mutagenesis Sun D, Ostermaier Martin K, Heydenreich Franziska M, Mayer D, Jaussi R, Standfuss J, Veprintsev Dmitry B
PLOS ONE 8, e78878 (2013).
DOI: 10.1371/journal.pone.0078878
An efficient nanolitre-volume multi-channel device for highly viscous materials used in membrane protein crystallization Luo J, Zwier R, Abrahams J
JOURNAL OF APPLIED CRYSTALLOGRAPHY 46, 829 (2013).
DOI: 10.1107/S0021889813006742
Anomalous signal from S atoms in protein crystallographic data from an X-ray free-electron laser Barends Thomas R M, Foucar Lutz, Shoeman Robert L, Bari Sadia, Epp Sascha W, Hartmann Robert, Hauser Gunter, Huth Martin, Kieser Christian, Lomb Lukas, Motomura Koji, Nagaya Kiyonobu, Schmidt Carlo, Strecker Rafael, Anielski Denis, Boll Rebecca, Erk Benjamin, Fukuzawa Hironobu, Hartmann Elisabeth, Hatsui Takaki, Holl Peter, Inubushi Yuichi, Ishikawa Tetsuya, Kassemeyer Stephan, Kaiser Christian, Koeck Frank, Kunishima Naoki, Kurka Moritz, Rolles Daniel, Rudek Benedikt, Rudenko Artem, Sato Takahiro, Schroeter Claus-Dieter, Soltau Heike, Strueder Lothar, Tanaka Tomoyuki, Togashi Tadashi, Tono Kensuke, Ullrich Joachim, Yase Satoshi, Wada Shin-ichi, Yao Makoto, Yabashi Makina, Ueda Kiyoshi, Schlichting Ilme
ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY 69, 838-842 (2013).
DOI: 10.1107/S0907444913002448
Biophysical Studies of the Amyloid ?-Peptide: Interactions with Metal Ions and Small Molecules Wärmländer S, Tiiman A, Abelein A, Luo J, Jarvet J, Söderberg Kajsa L, Danielsson J, Gräslund A
CHEMBIOCHEM 14, 1692 (2013).
DOI: 10.1002/cbic.201300262
Capture of unstable protein complex on the streptavidin-coated single-walled carbon nanotubes Liu Z, Voskamp P, Zhang Y, Chu F, Abrahams J
JOURNAL OF NANOPARTICLE RESEARCH 15, (2013).
DOI: 10.1007/s11051-013-1582-9
Cellular Polyamines Promote Amyloid-Beta (A?) Peptide Fibrillation and Modulate the Aggregation Pathways Luo J, Yu C, Yu H, Borstnar R, Kamerlin Shina CL, Gräslund A, Abrahams J, Wärmländer Sebastian KTS
ACS Chemical Neuroscience 4, 454 (2013).
DOI: 10.1021/cn300170x
Cholesterol-Diethylenetriaminepentaacetate Complexed with Thulium Ions Integrated into Bicelles To Increase Their Magnetic Alignability Liebi M, Kuster S, Kohlbrecher J, Ishikawa T, Fischer P, Walde P, Windhab Erich J
JOURNAL OF PHYSICAL CHEMISTRY B 117, 14743 (2013).
DOI: 10.1021/jp406599c
Constitutively active rhodopsin mutants causing night blindness are effectively phosphorylated by GRKs but differ in arrestin-1 binding Vishnivetskiy SergeyA, Ostermaier Martin K, Singhal A, Panneels V, Homan Kristoff T, Glukhova A, Sligar Stephen G, Tesmer John JG, Schertler Gebhard FX, Standfuss J, Gurevich Vsevolod V
CELLULAR SIGNALLING 25, 2155 (2013).
DOI: 10.1016/j.cellsig.2013.07.009
Coordination of VEGF receptor trafficking and signaling by coreceptors Nakayama M, Berger P
EXPERIMENTAL CELL RESEARCH 319, 1340 (2013).
DOI: 10.1016/j.yexcr.2013.03.008
Human lysozyme inhibits the in vitro aggregation of A? peptides, which in vivo are associated with Alzheimer's disease Luo J, Wärmländer Sebastian KTS, Gräslund A, Abrahams J
CHEMICAL COMMUNICATIONS 49, 6507 (2013).
DOI: 10.1039/c3cc42325e
Imaging protein three-dimensional nanocrystals with cryo-EM Nederlof I, Li Y, van Heel M, Abrahams J
ACTA CRYSTALLOGRAPHICA SECTION D - BIOLOGICAL CRYSTALLOGRAPHY 69, 852 (2013).
DOI: 10.1107/S0907444913002734
Insights into congenital stationary night blindness based on the structure of G90D rhodopsin Singhal Ankita, Ostermaier Martin K, Vishnivetskiy Sergey A, Panneels Valerie, Homan Kristoff T, Tesmer John J G, Veprintsev Dmitry, Deupi Xavier, Gurevich Vsevolod V, Schertler Gebhard F X, Standfuss Joerg
EMBO REPORTS 14, 520-526 (2013).
DOI: 10.1038/embor.2013.44
TRiC?s tricks inhibit huntingtin aggregation Shahmoradian S, Galaz-Montoya J, Schmid M, Cong Y, Ma B, Spiess C, Frydman J, Ludtke S, Chiu W
ELIFE 2, - (2013).
DOI: 10.7554/eLife.00710
Visualizing the localization of transfection complexes during graphene nanoparticle-based transfection Bruggencate F, Laroche F, Zhang Y, Song G, Yin S, Abrahams J, Liu Z
JOURNAL OF MATERIALS CHEMISTRY B 1, 6353 (2013).
DOI: 10.1039/C3TB21349H

Characterisation of a counting imaging detector for electron detection in the energy range 10?20keV Moldovan G, Sikharulidze I, Matheson J, Derbyshire G, Kirkland AI, Abrahams JP
Nuclear Instruments and Methods in Physics Research Section A: Accelerators, Spectrometers, Dectectors and Associated Equipment 681, 21 (2012).
DOI: 10.1016/j.nima.2012.03.033
Comparative structural analysis of eukaryotic flagella and cilia from Chlamydomonas, Tetrahymena, and sea urchins Pigino G, Maheshwari A, Bui K, Shingyoji C, Kamimura S, Ishikawa T
JOURNAL OF STRUCTURAL BIOLOGY 178, 199 (2012).
DOI: 10.1016/j.jsb.2012.02.012
Conformation Effects of CpG Methylation on Single-Stranded DNA Oligonucleotides: Analysis of the Opioid Peptide Dynorphin-Coding Sequences Taqi M, Wärmländer Sebastian KTS, Yamskova O, Madani F, Bazov I, Luo J, Zubarev R, Verbeek D, Gräslund A, Bakalkin G
PLOS ONE 7, e39605 (2012).
DOI: 10.1371/journal.pone.0039605
Examining the promiscuous phosphatase activity of Pseudomonas aeruginosa arylsulfatase: A comparison to analogous phosphatases Luo J, van Loo B, Kamerlin SCL
PROTEINS: STRUCTURE, FUNCTION, AND BIOINFORMATICS 80, 1211 (2012).
DOI: 10.1002/prot.24020
Functionalized Low-Density Lipoprotein Nanoparticles for in Vivo Enhancement of Atherosclerosis on Magnetic Resonance Images Lowell Andrew N, Qiao H, Liu T, Ishikawa T, Zhang H, Oriana S, Wang M, Ricciotti E, FitzGerald Garret A, Zhou R, Yamakoshi Y
BIOCONJUGATE CHEMISTRY 23, 2313 (2012).
DOI: 10.1021/bc300561e
Mouse respiratory cilia with the asymmetric axonemal structure on sparsely distributed ciliary cells can generate overall directional flow Ueno H, Ishikawa T, Bui K, Gonda K, Ishikawa T, Yamaguchi T
Nanomedicine: Nanotechnology, Biology and Medicine 8, 1081 (2012).
DOI: 10.1016/j.nano.2012.01.004
Polarity and asymmetry in the arrangement of dynein and related structures in the Chlamydomonas axoneme Bui K, Yagi T, Yamamoto R, Kamiya R, Ishikawa T
The Journal of Cell Biology 198, 913 (2012).
DOI: 10.1083/jcb.201201120
Revisiting the Supramolecular Organization of Photosystem II in Chlamydomonas reinhardtii Tokutsu R, Kato N, Bui KH, Ishikawa T, Minagawa J
JOURNAL OF BIOLOGICAL CHEMISTRY 287, 31574 (2012).
DOI: 10.1074/jbc.M111.331991
Single-Walled Carbon Nanotubes as Scaffolds to Concentrate DNA for the Study of DNA-Protein Interactions Liu Z, Galli F, Waterreus W, Meulenbroek E, Koning Roman I, Lamers Gerda EM, Olsthoorn René CL, Pannu N, Oosterkamp TjerkH, Koster Abraham J, Dame Remus T, Abrahams J
CHEMPHYSCHEM 13, 1569 (2012).
DOI: 10.1002/cphc.201100896
Structure of a post-translationally processed heterodimeric double-headed Kunitz-type serine protease inhibitor from potato Meulenbroek Elisabeth M, Thomassen Ellen AJ, Pouvreau L, Abrahams J, Gruppen H, Pannu Navraj S
ACTA CRYSTALLOGRAPHICA SECTION D - BIOLOGICAL CRYSTALLOGRAPHY 68, 794 (2012).
DOI: 10.1107/S090744491201222X
Supramolecular Non-Amyloid Intermediates in the Early Stages of ?-Synuclein Aggregation Fauerbach Jonathan A, Yushchenko Dmytro A, Shahmoradian Sarah H, Chiu W, Jovin Thomas M, Jares-Erijman Elizabeth A
BIOPHYSICAL JOURNAL 102, 1127 (2012).
DOI: 10.1016/j.bpj.2012.01.051
Ultra-small graphene oxide functionalized with polyethylenimine (PEI) for very efficient gene delivery in cell and zebrafish embryos Zhou X, Laroche F, Lamers Gerda EM, Torraca V, Voskamp P, Lu T, Chu F, Spaink Herman P, Abrahams J, Liu Z
Nano Research 5, 703 (2012).
DOI: 10.1007/s12274-012-0254-x

A Straightforward and Robust Method for Introducing Human Hair as a Nucleant into High Throughput Crystallization Trials Nederlof I, Hosseini R, Georgieva D, Luo J, Li D, Abrahams J
CRYSTAL GROWTH & DESIGN 11, 1170 (2011).
DOI: 10.1021/cg101374r
A direct way of redox sensing Benoit Roger M, Auer Manfred
RNA BIOLOGY 8, 18-23 (2011).
DOI: 10.4161/rna.8.1.13555
Advances in the CRANK software suite for automated crystal structure solution Waterreus WJ, Skubák P, Sikharulidze I, Abrahams JP, de Graaff RAG, Pannu NS
Acta Crystallographica Section A Foundations of Crystallography 67, C659 (2011).
DOI: 10.1107/S0108767311083346
Cholesterol attenuates and prevents bilayer damage and breakdown in lipoperoxidized model membranes. A spin labeling EPR study Megli Francesco M, Conte E, Ishikawa T
Biochimica et Biophysica Acta (BBA) - Biomembranes 1808, 2267 (2011).
DOI: 10.1016/j.bbamem.2011.04.016
Cryoelectron tomography of radial spokes in cilia and flagella Pigino G, Bui K, Maheshwari A, Lupetti P, Diener D, Ishikawa T
The Journal of Cell Biology 195, 673 (2011).
DOI: 10.1083/jcb.201106125
EDIFF : a program for automated unit-cell determination and indexing of electron diffraction data Jiang L, Georgieva D, Abrahams J
JOURNAL OF APPLIED CRYSTALLOGRAPHY 44, 1132 (2011).
DOI: 10.1107/S0021889811030731
Electron diffraction of submicron three-dimensional protein crystals Nederlof I, Georgieva D, Abrahams JP
Acta Crystallographica Section A Foundations of Crystallography 67, C228 (2011).
DOI: 10.1107/S010876731109430X
Evaluation of Medipix2 detector for recording electron diffraction data in low dose conditions Georgieva D, Jansen J, Sikharulidze I, Jiang L, Zandbergen H, Abrahams J
JOURNAL OF INSTRUMENTATION 6, C01033 (2011).
DOI: 10.1088/1748-0221/6/01/C01033
IMPROVED IMAGING IN LOW ENERGY ELECTRON MICROSCOPY AND PHOTO EMISSION ELECTRON MICROSCOPY USING MEDIPIX2 PIXEL DETECTOR SIKHARULIDZE I, van GASTEL R, SCHRAMM S, ABRAHAMS JP, POELSEMA B, TROM RM, van der MOLEN SJ
Astroparticle, Particle and Space Physics, Detectors and Medical Physics Applications , (2011).
DOI: 10.1142/9789814307529_0023
Image Processing and Lattice Determination for Three-Dimensional Nanocrystals Jiang L, Georgieva D, Nederlof I, Liu Z, Abrahams J
MICROSCOPY AND MICROANALYSIS 17, 879 (2011).
DOI: 10.1017/S1431927611012244
Integration of multiple expression cassettes into mammalian genomes in a single step Kriz A, Schmid K, Ballmer K, Berger P
Protocol Exchange , (2011).
DOI: 10.1038/protex.2011.249
Low energy electron microscopy imaging using Medipix2 detector Sikharulidze I, van Gastel R, Schramm S, Abrahams JP, Poelsema B, Tromp RM, van der Molen SJ
Nuclear Instruments and Methods in Physics Research Section A: Accelerators, Spectrometers, Dectectors and Associated Equipment 633, S239 (2011).
DOI: 10.1016/j.nima.2010.06.177
Low-resolution electron crystallography challenges in organic and inorganic crystals with transmission electron microscope (TEM) Nicolopoulos S, Rauch E, Georgieva D, Abrahams JP
Acta Crystallographica Section A Foundations of Crystallography 67, C188 (2011).
DOI: 10.1107/S0108767311095304
Neuropilin-1 promotes VEGFR-2 trafficking through Rab11 vesicles thereby specifying signal output Ballmer-Hofer K, Andersson AE, Ratcliffe LE, Berger P
BLOOD 118, 816 (2011).
DOI: 10.1182/blood-2011-01-328773
RNA polymerase I?specific subunits promote polymerase clustering to enhance the rRNA gene transcription cycle Albert B, Léger-Silvestre I, Normand C, Ostermaier M, Pérez-Fernández J, Panov Kostya I, Zomerdijk Joost CBM, Schultz P, Gadal O
The Journal of Cell Biology 192, 277 (2011).
DOI: 10.1083/jcb.201006040
Recent advances in the CRANK software suite for experimental phasing Pannu Navraj S, Waterreus W, Skubák P, Sikharulidze I, Abrahams J, de Graaff Rudolf AG
ACTA CRYSTALLOGRAPHICA SECTION D - BIOLOGICAL CRYSTALLOGRAPHY 67, 331 (2011).
DOI: 10.1107/S0907444910052224
Ribonucleotide reductase inhibition by metal complexes of Triapine (3-aminopyridine-2-carboxaldehyde thiosemicarbazone): A combined experimental and theoretical study Popovic-Bijelic A, Kowol CR, Lind Maria ES, Luo J, Himo F, Enyedy EA, Arion VB, Graeslund A
JOURNAL OF INORGANIC BIOCHEMISTRY 105, 1422 (2011).
DOI: 10.1016/j.jinorgbio.2011.07.003
The CMT4B disease-causing proteins MTMR2 and MTMR13/SBF2 regulate AKT signalling Berger P, Tersar K, Ballmer-Hofer K, Suter U
JOURNAL OF CELLULAR AND MOLECULAR MEDICINE 15, 307 (2011).
DOI: 10.1111/j.1582-4934.2009.00967.x

2006 - 2010

A Graphene Oxide?Streptavidin Complex for Biorecognition - Towards Affinity Purification Liu Z, Jiang L, Galli F, Nederlof I, Olsthoorn René CL, Lamers Gerda EM, Oosterkamp TjerkH, Abrahams J
ADVANCED FUNCTIONAL MATERIALS 20, 2857 (2010).
DOI: 10.1002/adfm.201000761
A novel approximation method of CTF amplitude correction for 3D single particle reconstruction Jiang L, Liu Z, Georgieva D, Kuil Maxim E, Abrahams J
ULTRAMICROSCOPY 110, 350 (2010).
DOI: 10.1016/j.ultramic.2010.01.011
A plasmid-based multigene expression system for mammalian cells Kriz A, Schmid K, Baumgartner N, Ziegler U, Berger I, Ballmer-Hofer K, Berger P
NATURE COMMUNICATIONS 1, 120 (2010).
DOI: 10.1038/ncomms1120
In Silico Analysis of the Apolipoprotein E and the Amyloid ? Peptide Interaction: Misfolding Induced by Frustration of the Salt Bridge Network Luo J, Maréchal J, Wärmländer S, Gräslund A, Perálvarez-Marín A
PLOS COMPUTATIONAL BIOLOGY 6, e1000663 (2010).
DOI: 10.1371/journal.pcbi.1000663
Nucleotide-induced global conformational changes of flagellar dynein arms revealed by in situ analysis Movassagh T, Bui K, Sakakibara H, Oiwa K, Ishikawa T
NATURE STRUCTURAL & MOLECULAR BIOLOGY 17, 761 (2010).
DOI: 10.1038/nsmb.1832
Stable Single-Walled Carbon Nanotube-Streptavidin Complex for Biorecognition Liu Z, Galli F, Janssen Kjeld GH, Jiang L, van der Linden Heiko J, de Geus Daniel C, Voskamp P, Kuil Maxim E, Olsthoorn Rene CL, Oosterkamp TjerkH, Hankemeier T, Abrahams J
JOURNAL OF PHYSICAL CHEMISTRY C 114, 4345 (2010).
DOI: 10.1021/jp911441d
The strong phase object approximation may allow extending crystallographic phases of dynamical electron diffraction patterns of 3D protein nano-crystals Abrahams J
ZEITSCHRIFT FUR KRISTALLOGRAPHIE 225, (2010).
DOI: 10.1524/zkri.2010.1216
Three-dimensional structural analysis of eukaryotic flagella/cilia by electron cryo-tomography Bui K, Pigino G, Ishikawa T
JOURNAL OF SYNCHROTRON RADIATION 18, 2 (2010).
DOI: 10.1107/s0909049510036812

An Intelligent Peak Search Program for Digital Electron Diffraction Images of 3D Nano-Crystals Jiang L, Georgieva D, IJspeert K, Abrahams J
2009 2nd International Congress on Image and Signal Processing , (2009).
DOI: 10.1109/CISP.2009.5301421
Asymmetry of inner dynein arms and inter-doublet links in Chlamydomonas flagella Bui K, Sakakibara H, Movassagh T, Oiwa K, Ishikawa T
The Journal of Cell Biology 186, 437 (2009).
DOI: 10.1083/jcb.200903082
Automated unrestricted multigene recombineering for multiprotein complex production Bieniossek C, Nie Y, Frey D, Olieric N, Schaffitzel C, Collinson I, Romier C, Berger P, Richmond T, Steinmetz M, Berger I
NATURE METHODS 6, 447 (2009).
DOI: 10.1038/nmeth.1326
Characterization of a diagnostic Fab fragment binding trimeric Lewis X de Geus Daniël C, van Roon AnneMarie M, Thomassen Ellen AJ, Hokke Cornelis H, Deelder André M, Abrahams J
PROTEINS: STRUCTURE, FUNCTION, AND BIOINFORMATICS 76, 439 (2009).
DOI: 10.1002/prot.22356
Crystal Structure of Chlorite Dismutase, a Detoxifying Enzyme Producing Molecular Oxygen de Geus Daniël C, Thomassen Ellen AJ, Hagedoorn P, Pannu Navraj S, van Duijn E, Abrahams J
JOURNAL OF MOLECULAR BIOLOGY 387, 192 (2009).
DOI: 10.1016/j.jmb.2009.01.036
Identification of the variant Ala335Val of MED25 as responsible for CMT2B2: molecular data, functional studies of the SH3 recognition motif and correlation between wild-type MED25 and PMP22 RNA levels in CMT1A animal models Leal A, Huehne K, Bauer F, Sticht H, Berger P, Suter U, Morera B, Del Valle G, Lupski James R, Ekici A, Pasutto F, Endele S, Barrantes R, Berghoff C, Berghoff M, Neundörfer B, Heuss D, Dorn T, Young P, Santolin L, Uhlmann T, Meisterernst M, Sereda M, zu Horste G, Nave K, Reis A, Rautenstrauss B
NEUROGENETICS 10, 275 (2009).
DOI: 10.1007/s10048-009-0183-3
Involvement of a carboxylated lysine in UV damage endonuclease Meulenbroek Elisabeth M, Paspaleva K, Thomassen Ellen AJ, Abrahams J, Goosen N, Pannu Navraj S
PROTEIN SCIENCE 18, 549 (2009).
DOI: 10.1002/pro.54
Macromolecular electron crystallography Abrahams J, Jiang L, Sikhuralidze I, Nederloff I, Zandbergen H, Georgieva D
Acta Crystallographica Section A Foundations of Crystallography 65, s7 (2009).
DOI: 10.1107/S0108767309099875
Mammalian Navigators are microtubule plus-end tracking proteins that can reorganize the cytoskeleton to induce neurite-like extensions van Haren J, Draegestein K, Keijzer N, Abrahams J, Grosveld F, Peeters P, Moechars D, Galjart N
Cell Motility and the Cytoskeleton 66, 824 (2009).
DOI: 10.1002/cm.20370
Medipix 2 detector applied to low energy electron microscopy van Gastel R, Sikharulidze I, Schramm S, Abrahams JP, Poelsema B, Tromp RM, van der Molen SJ
ULTRAMICROSCOPY 110, 33 (2009).
DOI: 10.1016/j.ultramic.2009.09.002
Recent advances in CRANK Waterreus W, Pannu N, Skubák P, Sikharulidze I, Abrahams J, de Graaff RAG
Acta Crystallographica Section A Foundations of Crystallography 65, s160 (2009).
DOI: 10.1107/S0108767309096743
Recycling of Aborted Ribosomal 50S Subunit-Nascent Chain-tRNA Complexes by the Heat Shock Protein Hsp15 Jiang L, Schaffitzel C, Bingel-Erlenmeyer R, Ban N, Korber P, Koning Roman I, de Geus Daniël C, Plaisier Jasper R, Abrahams J
JOURNAL OF MOLECULAR BIOLOGY 386, 1357 (2009).
DOI: 10.1016/j.jmb.2008.10.079
Terminal Adenosyl Transferase Activity of Posttranscriptional Regulator HuR Revealed by Confocal On-Bead Screening Meisner N, Hintersteiner M, Seifert J, Bauer R, Benoit R, Widmer A, Schindler T, Uhl V, Lang M, Gstach H, Auer M
JOURNAL OF MOLECULAR BIOLOGY 386, 435 (2009).
DOI: 10.1016/j.jmb.2008.12.020
The Max-Inf2/Lorentz Center workshop on New algorithms in macromolecular crystallography and electron microscopy Pannu Navraj S, Ravelli Raimond BG, Abrahams J
ACTA CRYSTALLOGRAPHICA SECTION D - BIOLOGICAL CRYSTALLOGRAPHY 65, 623 (2009).
DOI: 10.1107/S0907444909020861
Unit-cell determination from randomly oriented electron-diffraction patterns Jiang L, Georgieva D, Zandbergen Henny W, Abrahams J
ACTA CRYSTALLOGRAPHICA SECTION D - BIOLOGICAL CRYSTALLOGRAPHY 65, 625 (2009).
DOI: 10.1107/S0907444909003163

Anti-Mullerian-hormone-dependent regulation of the brain serine-protease inhibitor neuroserpin Lebeurrier N, Launay S, Macrez R, Maubert E, Legros H, Leclerc A, Jamin SP, Picard JY, Marret S, Laudenbach V, Berger P, Sonderegger P, Ali C, di Clemente N, Vivien D
JOURNAL OF CELL SCIENCE 121, 3357 (2008).
DOI: 10.1242/jcs.031872
Cloning, expression, purification, crystallization and preliminary X-ray diffraction analysis of chlorite dismutase: a detoxifying enzyme producing molecular oxygen de Geus Daniël C, Thomassen Ellen AJ, van der Feltz Clarisse L, Abrahams J
Acta Crystallographica Section F Structural Biology and Crystallization Communications 64, 730 (2008).
DOI: 10.1107/S1744309108020551
Microtubule Plus-End Conformations and Dynamics in the Periphery of Interphase Mouse Fibroblasts Zovko S, Abrahams JP, Koster AJ, Galjart N, Mommaas AM
MOLECULAR BIOLOGY OF THE CELL 19, 3138 (2008).
DOI: 10.1091/mbc.E07-07-0681
Molecular architecture of inner dynein arms in situ in Chlamydomonas reinhardtii flagella Bui K, Sakakibara H, Movassagh T, Oiwa K, Ishikawa T
The Journal of Cell Biology 183, 923 (2008).
DOI: 10.1083/jcb.200808050
Prospects for structure solution by electron diffraction of three-dimensional protein crystals Abrahams JP, Georgieva D, Jiang L, Zandbergen HW
Acta Crystallographica Section A Foundations of Crystallography 64, C75 (2008).
DOI: 10.1107/S0108767308097584

Crystal Structure of the DNA Repair Enzyme Ultraviolet Damage Endonuclease Paspaleva K, Thomassen E, Pannu Navraj S, Iwai S, Moolenaar Geri F, Goosen N, Abrahams J
STRUCTURE 15, 1316 (2007).
DOI: 10.1016/j.str.2007.05.010
Cyclops: New modular software suite for cryo-EM Plaisier JR, Jiang L, Abrahams JP
JOURNAL OF STRUCTURAL BIOLOGY 157, 19 (2007).
DOI: 10.1016/j.jsb.2006.07.002
Early segregation of layered projections from the lateral superior olivary nucleus to the central nucleus of the inferior colliculus in the neonatal cat Gabriele Mark L, Shahmoradian SH, French Christopher C, Henkel Craig K, McHaffie John G
BRAIN RESEARCH 1173, 66 (2007).
DOI: 10.1016/j.brainres.2007.07.055
Heterogeneous nucleation of three-dimensional protein nanocrystals Georgieva Dilyana G, Kuil Maxim E, Oosterkamp Tjerk H, Zandbergen Henny W, Abrahams J
ACTA CRYSTALLOGRAPHICA SECTION D - BIOLOGICAL CRYSTALLOGRAPHY 63, 564 (2007).
DOI: 10.1107/S0907444907007810
Mtmr13/Sbf2-deficient mice: an animal model for CMT4B2 Tersar K, Boentert M, Berger P, Bonneick S, Wessig C, Toyka KV, Young P, Suter U
HUMAN MOLECULAR GENETICS 16, 2991 (2007).
DOI: 10.1093/hmg/ddm257
Multiprotein Expression Strategy for Structural Biology of Eukaryotic Complexes Fitzgerald Daniel J, Schaffitzel C, Berger P, Wellinger R, Bieniossek C, Richmond Timothy J, Berger I
STRUCTURE 15, 275 (2007).
DOI: 10.1016/j.str.2007.01.016
Recent advances in the CRANK automated structure solution suite Pannu NS, Skubak P, Sikharulidze I, Abrahams JP, de Graaff RAG
Acta Crystallographica Section A Foundations of Crystallography 63, s116 (2007).
DOI: 10.1107/S0108767307097516
Solving Ab-initio Protein and Nanostructures with Precession Electron Diffraction Georgieva D, Abrahams J, Zandbergen H, Nikolopoulos S, Boulahya K
MICROSCOPY AND MICROANALYSIS 13, (2007).
DOI: 10.1017/S1431927607072698
Structure of the E. coli signal recognition particle bound to a translating ribosome Schaffitzel C, Oswald M, Berger I, Ishikawa T, Abrahams J, Koerten Henk K, Koning Roman I, Ban N
NATURE 448, 1076 (2007).
DOI: 10.1038/nature06169

An improved method for fast, robust, and seamless integration of DNA fragments into multiple plasmids Benoit RM, Wilhelm RN, Scherer-Becker D, Ostermeier C
PROTEIN EXPRESSION AND PURIFICATION 45, 66-71 (2006).
DOI: 10.1016/j.pep.2005.09.022
Multi-level regulation of myotubularin-related protein-2 phosphatase activity by myotubularin-related protein-13/set-binding factor-2 Berger P, Berger I, Schaffitzel C, Tersar K, Volkmer B, Suter U
HUMAN MOLECULAR GENETICS 15, 569 (2006).
DOI: 10.1093/hmg/ddi473
Nano-dispensing by electrospray for biotechnology Kuil Maxim E, Abrahams J, Marijnissen Jan CM
Biotechnology Journal 1, 969 (2006).
DOI: 10.1002/biot.200600062
Pathomechanisms of mutant proteins in Charcot-Marie-Tooth disease Niemann A, Berger P, Suter U
NEUROMOLECULAR MEDICINE 8, 217 (2006).
DOI: 10.1385/NMM:8:1:217
Protein complex expression by using multigene baculoviral vectors Fitzgerald D, Berger P, Schaffitzel C, Yamada K, Richmond T, Berger I
NATURE METHODS 3, 1021 (2006).
DOI: 10.1038/nmeth983
Schwann cells and the pathogenesis of inherited motor and sensory neuropathies (Charcot-Marie-Tooth disease) Berger P, Niemann A, Suter U
GLIA 54, 243 (2006).
DOI: 10.1002/glia.20386
Structure of the E. coli signal recognition particle bound to a translating ribosome Schaffitzel C, Oswald M, Berger I, Ishikawa T, Abrahams J, Koerten Henk K, Koning Roman I, Ban N
NATURE 444, 503 (2006).
DOI: 10.1038/nature05182
The Impact of Single Amino Acid Substitutions in CD3? on the CD3?? Interaction and T-Cell Receptor?CD3 Complex Formation Thomassen EAJ, Dekking EHA, Thompson A, Franken KL, Sanal Ö, Abrahams JP, van Tol MJD, Koning F
HUMAN IMMUNOLOGY 67, 579 (2006).
DOI: 10.1016/j.humimm.2006.04.015

1998 - 2005

The protein structure of recombinant human lactoferrin produced in the milk of transgenic cows closely matches the structure of human milk-derived lactoferrin Thomassen Ellen AJ, Veen Harrie Avan, Berkel Patrick HCvan, Nuijens Jan H, Abrahams J
TRANSGENIC RESEARCH 14, 397 (2005).
DOI: 10.1007/s11248-005-3233-0

CRANK - new methods for automated structure solution Ness S, de Graaff RAG, Abrahams JP, Pannu NS
Acta Crystallographica Section A Foundations of Crystallography 60, s16 (2004).
DOI: 10.1107/S0108767304099702
Crystal Structure of an Empty Capsid of Turnip Yellow Mosaic Virus van Roon AnneMarie M, Bink Hugo HJ, Plaisier Jasper R, Pleij Cornelis WA, Abrahams J, Pannu Navraj S
JOURNAL OF MOLECULAR BIOLOGY 341, 1205 (2004).
DOI: 10.1016/j.jmb.2004.06.085
Crystallization and preliminary X-ray crystallographic studies on a Kunitz-type potato serine protease inhibitor Thomassen Ellen AJ, Pouvreau L, Gruppen H, Abrahams J
ACTA CRYSTALLOGRAPHICA SECTION D - BIOLOGICAL CRYSTALLOGRAPHY 60, 1464 (2004).
DOI: 10.1107/S0907444904013484
Effect of reactive site loop elongation on the inhibitory activity of C1-inhibitor Bos IGA, Lubbers YTP, Eldering E, Abrahams JP, Hack CE
Biochimica et Biophysica Acta (BBA) - Proteins & Proteomics 1699, 139 (2004).
DOI: 10.1016/j.bbapap.2004.02.006
Relevance of Apoptin's Integrity for Its Functional Behavior Rohn JL, Zhang YH, Leliveld SR, Danen-van Oorschot AAAM, Henriquez NV, Abrahams JP, Noteborn MHM
JOURNAL OF VIROLOGY 79, 1337 (2004).
DOI: 10.1128/JVI.79.2.1337-1338.2005
Structure of an Anti-Lewis X Fab Fragment in Complex with Its Lewis X Antigen van Roon A, Pannu N, de Vrind Johannes PM, van der Marel G, van Boom J, Hokke C, Deelder A, Abrahams J
STRUCTURE 12, 1227 (2004).
DOI: 10.1016/j.str.2004.05.008
TYSON: Robust searching, sorting, and selecting of single particles in electron micrographs Plaisier J, Leliveld SR, Kooistraa K, Molenaarc C, Rohan JL, Tanker HJ, Abrahams JP, Noteborn MHM
JOURNAL OF STRUCTURAL BIOLOGY 145, 76 (2004).
DOI: 10.1016/j.jsb.2003.09.030

ATP-induced conformational changes of the nucleotide-binding domain of Na,K-ATPase Hilge M, Siegal G, Vuister G, Güntert P, Gloor S, Abrahams J
Nature Structural Biology 10, 468 (2003).
DOI: 10.1038/nsb924
Apoptin protein multimers form distinct higher-order nucleoprotein complexes with DNA Leliveld SR, Dame RT, Kommas MA, Koerten HK, Wyman C, Danen-van Oorschot AAAM, Rohn JL, Noteborn MHM, Abrahams JP
NUCLEIC ACIDS RESEARCH 31, 4805 (2003).
DOI: 10.1093/nar/gkg661
Apoptin's functional N- and C-termini independently bind DNA Leliveld SR, Dame RT, Rohn JL, Noteborn MHM, Abrahams JP
FEBS LETTERS 557, 155 (2003).
DOI: 10.1016/S0014-5793(03)01465-0
Area detectors in structural biology Plaisier JR, Koning RI, Koerten HK, Roon AMvan, Thomassen EAJ, Kuil ME, Hendrix J, Broennimann C, Pannu NS, Abrahams JP
Nuclear Instruments and Methods in Physics Research Section A: Accelerators, Spectrometers, Dectectors and Associated Equipment 509, 274 (2003).
DOI: 10.1016/S0168-9002(03)01638-3
Crystallization and preliminary X-ray analysis of an anti-LewisX Fab fragment with and without its LewisX antigen van Roon AnneMarie M, Pannu Navraj S, Hokke Cornelis H, Deelder Andre M, Abrahams J
ACTA CRYSTALLOGRAPHICA SECTION D - BIOLOGICAL CRYSTALLOGRAPHY 59, 1306 (2003).
DOI: 10.1107/S0907444903010096
Importance of Nuclear Localization of Apoptin for Tumor-specific Induction of Apoptosis Danen-van Oorschot AAAM, Zhang YH, Leliveld SR, Rohn JL, Seelen MCMJ, Bolk MW, van Zon A, Erkeland SJ, Abrahams JP, Mumberg D, Noteborn MHM
JOURNAL OF BIOLOGICAL CHEMISTRY 278, 27729 (2003).
DOI: 10.1074/jbc.M303114200
Mechanism of Thrombin's Enigmatic Sodium Switch Revealed Abrahams J, Thomassen Ellen AJ
STRUCTURE 11, 363 (2003).
DOI: 10.1016/S0969-2126(03)00056-X
Prevalent conformations and subunit exchange in the biologically active apoptin protein multimer Leliveld Sirik R, Noteborn Mathieu HM, Abrahams J
EUROPEAN JOURNAL OF BIOCHEMISTRY 270, 3619 (2003).
DOI: 10.1046/j.1432-1033.2003.03750.x
Recombinant apoptin multimers kill tumor cells but are nontoxic and epitope-shielded in a normal-cell-specific fashion Zhang YH, Leliveld SR, Kooistraa K, Molenaarc C, Rohan JL, Tanker HJ, Abrahams JP, Noteborn MHM
EXPERIMENTAL CELL RESEARCH 289, 36 (2003).
DOI: 10.1016/S0014-4827(03)00188-5
Structure of ?-Antithrombin and the Effect of Glycosylation on Antithrombin's Heparin Affinity and Activity McCoy Airlie J, Pei X, Skinner R, Abrahams J, Carrell Robin W
JOURNAL OF MOLECULAR BIOLOGY 326, 823 (2003).
DOI: 10.1016/S0022-2836(02)01382-7
The Functional Integrity of the Serpin Domain of C1-inhibitor Depends on the Unique N-terminal Domain, as Revealed by a Pathological Mutant Bos IGA, Lubbers YTP, Roem D, Abrahams JP, Hack CE, Eldering E
JOURNAL OF BIOLOGICAL CHEMISTRY 278, 29463 (2003).
DOI: 10.1074/jbc.M302977200
The Structure of the Receptor-binding Domain of the Bacteriophage T4 Short Tail Fibre Reveals a Knitted Trimeric Metal-binding Fold Thomassen E, Gielen G, Schütz M, Schoehn G, Abrahams J, Miller S, van Raaij Mark J
JOURNAL OF MOLECULAR BIOLOGY 331, 361 (2003).
DOI: 10.1016/S0022-2836(03)00755-1
Visualization by Cryo-electron Microscopy of Genomic RNA that Binds to the Protein Capsid Inside Bacteriophage MS2 Koning R, van den Worm S, Plaisier Jasper R, van Duin J, Abrahams JP, Koerten H
JOURNAL OF MOLECULAR BIOLOGY 332, 415 (2003).
DOI: 10.1016/S0022-2836(03)00846-5

A novel pH-dependent dimerization motif in ?-lactoglobulin from pig ( Sus scrofa ) Hoedemaeker Flip J, Visschers Ronald W, Alting Arno C, de Kruif Kees G, Kuil Maxim E, Abrahams J
ACTA CRYSTALLOGRAPHICA SECTION D - BIOLOGICAL CRYSTALLOGRAPHY 58, 480 (2002).
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Apoptin Induces Tumor-specific Apoptosis as a Globular Multimer Leliveld SR, Zhang YH, Sohn JL, Noteborn MHM, Abrahams JP
JOURNAL OF BIOLOGICAL CHEMISTRY 278, 9042 (2002).
DOI: 10.1074/jbc.M210803200
Protein nano-crystallogenesis Kuil M, Bodenstaff ERené, Hoedemaeker F, Abrahams J
ENZYME AND MICROBIAL TECHNOLOGY 30, 262 (2002).
DOI: 10.1016/S0141-0229(01)00496-3
Screening crystallisation conditions using fluorescence correlation spectroscopy Schmauder R, Schmidt T, Abrahams J, Kuil Maxim E
ACTA CRYSTALLOGRAPHICA SECTION D - BIOLOGICAL CRYSTALLOGRAPHY 58, 1536 (2002).
DOI: 10.1107/S0907444902014373
Structural and Functional Aspects of C1-Inhibitor Bos I, Hack CE, Abrahams JP
IMMUNOBIOLOGY 205, 518 (2002).
DOI: 10.1078/0171-2985-00151
The prospects of protein nanocrystallography Bodenstaff ERene, Hoedemaeker Flip J, Kuil Maxim E, de Vrind Hans PM, Abrahams J
ACTA CRYSTALLOGRAPHICA SECTION D - BIOLOGICAL CRYSTALLOGRAPHY 58, 1901 (2002).
DOI: 10.1107/S0907444902016608

Matrix methods for solving protein substructures of chlorine and sulfur from anomalous data de Graaff Rudolf AG, Hilge M, van der Plas Jaco L, Abrahams J
ACTA CRYSTALLOGRAPHICA SECTION D - BIOLOGICAL CRYSTALLOGRAPHY 57, 1857 (2001).
DOI: 10.1107/S0907444901016535
Structure elucidation of ?-mannanase: from the electron-density map to the DNA sequence Hilge M, Perrakis A, Abrahams J, Winterhalter K, Piontek K, Gloor Sergio M
ACTA CRYSTALLOGRAPHICA SECTION D - BIOLOGICAL CRYSTALLOGRAPHY 57, 37 (2001).
DOI: 10.1107/S0907444900015547

Crystal structure of the C-terminal SH2 domain of the p85? regulatory subunit of phosphoinositide 3-kinase: an SH2 domain mimicking its own substrate Hoedemaeker F, Siegal G, Roe SMark, Driscoll P, Abrahams J
JOURNAL OF MOLECULAR BIOLOGY 292, 763 (1999).
DOI: 10.1006/jmbi.1999.3111

Implications for function and therapy of a 2.9 å structure of binary-complexed antithrombin Skinner R, Chang W, Jin L, Pei X, Huntington J, Abrahams J, Carrell R, Lomas D
JOURNAL OF MOLECULAR BIOLOGY 283, 9 (1998).
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New developments in phase refinement Abrahams J, De Graaff R
CURRENT OPINION IN STRUCTURAL BIOLOGY 8, 601 (1998).
DOI: 10.1016/S0959-440X(98)80151-6
Wild-type ?1-antitrypsin is in the canonical inhibitory conformation Elliott P, Abrahams J, Lomas D
JOURNAL OF MOLECULAR BIOLOGY 275, 419 (1998).
DOI: 10.1006/jmbi.1997.1458