Partial List of NCMI Publications

2012

Comparison of Segger and other methods for segmentation and rigid-body docking of molecular components in cryo-EM density maps. (2012) Pintilie, G, Chiu, W. Biopolymers
Gorgon and pathwalking: macromolecular modeling tools for subnanometer resolution density maps. (2012) Baker, ML, Baker, MR, Hryc, CF, Ju, T, Chiu, W. Biopolymers
The 2010 cryo-EM modeling challenge. (2012) Ludtke, SJ, Lawson, CL, Kleywegt, GJ, Berman, H, Chiu, W. Biopolymers
An examination of the electrostatic interactions between the N-terminal tail of the Brome Mosaic Virus coat protein and encapsidated RNAs. (2012) Ni, P, Wang, Z, Ma, X, Das, NC, Sokol, P, Chiu, W, Dragnea, B, Hagan, M, Kao, CC. Journal of molecular biology
The molecular architecture of the eukaryotic chaperonin TRiC/CCT. (2012) Leitner, A, Joachimiak, LA, Bracher, A, Mönkemeyer, L, Walzthoeni, T, Chen, B, Pechmann, S, Holmes, S, Cong, Y, Ma, B, Ludtke, S, Chiu, W, Hartl, FU, Aebersold, R, Frydman, J. Structure (London, England : 1993)
Constructing and validating initial Cα models from subnanometer resolution density maps with pathwalking. (2012) Baker, MR, Rees, I, Ludtke, SJ, Chiu, W, Baker, ML. Structure (London, England : 1993)
Supramolecular non-amyloid intermediates in the early stages of α-synuclein aggregation. (2012) Fauerbach, JA, Yushchenko, DA, Shahmoradian, SH, Chiu, W, Jovin, TM, Jares-Erijman, EA. Biophysical journal
Direct electron detection yields cryo-EM reconstructions at resolutions beyond 3/4 Nyquist frequency. (2012) Bammes, BE, Rochat, RH, Jakana, J, Chen, DH, Chiu, W. Journal of structural biology
Paraneoplastic thrombocytosis in ovarian cancer. (2012) Stone, RL, Nick, AM, McNeish, IA, Balkwill, F, Han, HD, Bottsford-Miller, J, Rupairmoole, R, Armaiz-Pena, GN, Pecot, CV, Coward, J, Deavers, MT, Vasquez, HG, Urbauer, D, Landen, CN, Hu, W, Gershenson, H, Matsuo, K, Shahzad, MM, King, ER, Tekedereli, I, Ozpolat, B, Ahn, EH, Bond, VK, Wang, R, Drew, AF, Gushiken, F, Lamkin, D, Collins, K, DeGeest, K, Lutgendorf, SK, Chiu, W, Lopez-Berestein, G, Afshar-Kharghan, V, Sood, AK. The New England journal of medicine
Outcome of the first electron microscopy validation task force meeting. (2012) Henderson, R, Sali, A, Baker, ML, Carragher, B, Devkota, B, Downing, KH, Egelman, EH, Feng, Z, Frank, J, Grigorieff, N, Jiang, W, Ludtke, SJ, Medalia, O, Penczek, PA, Rosenthal, PB, Rossmann, MG, Schmid, MF, Schröder, GF, Steven, AC, Stokes, DL, Westbrook, JD, Wriggers, W, Yang, H, Young, J, Berman, HM, Chiu, W, Kleywegt, GJ, Lawson, CL. Structure (London, England : 1993)
Symmetry-free cryo-EM structures of the chaperonin TRiC along its ATPase-driven conformational cycle. (2012) Cong, Y, Schröder, GF, Meyer, AS, Jakana, J, Ma, B, Dougherty, MT, Schmid, MF, Reissmann, S, Levitt, M, Ludtke, SL, Frydman, J, Chiu, W. The EMBO journal
A tail-like assembly at the portal vertex in intact herpes simplex type-1 virions. (2012) Schmid, MF, Hecksel, CW, Rochat, RH, Bhella, D, Chiu, W, Rixon, FJ. PLoS pathogens
Filamentous, mixed micelles of triblock copolymers enhance tumor localization of indocyanine green in a murine xenograft model. (2012) Kim, TH, Mount, CW, Dulken, BW, Ramos, J, Fu, CJ, Khant, HA, Chiu, W, Gombotz, WR, Pun, SH. Molecular pharmaceutics

2011

4.4 Å cryo-EM structure of an enveloped alphavirus Venezuelan equine encephalitis virus. (2011) Zhang, R, Hryc, CF, Cong, Y, Liu, X, Jakana, J, Gorchakov, R, Baker, ML, Weaver, SC, Chiu, W. The EMBO journal
Crystal structure of the cytoplasmic N-terminal domain of subunit I, a homolog of subunit a, of V-ATPase. (2011) Srinivasan, S, Vyas, NK, Baker, ML, Quiocho, FA. Journal of molecular biology
The structure of barmah forest virus as revealed by cryo-electron microscopy at a 6-angstrom resolution has detailed transmembrane protein architecture and interactions. (2011) Kostyuchenko, VA, Jakana, J, Liu, X, Haddow, AD, Aung, M, Weaver, SC, Chiu, W, Lok, SM. Journal of virology
Practical performance evaluation of a 10k × 10k CCD for electron cryo-microscopy. (2011) Bammes, BE, Rochat, RH, Jakana, J, Chiu, W. Journal of structural biology
Flexible architecture of IP3R1 by Cryo-EM. (2011) Ludtke, SJ, Tran, TP, Ngo, QT, Moiseenkova-Bell, VY, Chiu, W, Serysheva, II. Structure (London, England : 1993)
Near-atomic-resolution cryo-EM for molecular virology. (2011) Hryc, CF, Chen, DH, Chiu, W. Current opinion in virology
Structure of Trypanosoma brucei flagellum accounts for its bihelical motion. (2011) Koyfman, AY, Schmid, MF, Gheiratmand, L, Fu, CJ, Khant, HA, Huang, D, He, CY, Chiu, W. Proceedings of the National Academy of Sciences of the United States of America
Effect of the peptide secondary structure on the peptide amphiphile supramolecular structure and interactions. (2011) Missirlis, D, Chworos, A, Fu, CJ, Khant, HA, Krogstad, DV, Tirrell, M. Langmuir : the ACS journal of surfaces and colloids
Cryo-EM structure of a group II chaperonin in the prehydrolysis ATP-bound state leading to lid closure. (2011) Zhang, J, Ma, B, DiMaio, F, Douglas, NR, Joachimiak, LA, Baker, D, Frydman, J, Levitt, M, Chiu, W. Structure (London, England : 1993)
Modeling protein structure at near atomic resolutions with Gorgon. (2011) Baker, ML, Abeysinghe, SS, Schuh, S, Coleman, RA, Abrams, A, Marsh, MP, Hryc, CF, Ruths, T, Chiu, W, Ju, T. Journal of structural biology
Partially polymerized liposomes: stable against leakage yet capable of instantaneous release for remote controlled drug delivery. (2011) Qin, G, Li, Z, Xia, R, Li, F, O'Neill, BE, Goodwin, JT, Khant, HA, Chiu, W, Li, KC. Nanotechnology
Interbilayer-crosslinked multilamellar vesicles as synthetic vaccines for potent humoral and cellular immune responses. (2011) Moon, JJ, Suh, H, Bershteyn, A, Stephan, MT, Liu, H, Huang, B, Sohail, M, Luo, S, Um, SH, Khant, H, Goodwin, JT, Ramos, J, Chiu, W, Irvine, DJ. Nature materials
Electron cryomicroscopy structure of a membrane-anchored mitochondrial AAA protease. (2011) Lee, S, Augustin, S, Tatsuta, T, Gerdes, F, Langer, T, Tsai, FT. The Journal of biological chemistry
Seeing the portal in herpes simplex virus type 1 B capsids. (2011) Rochat, RH, Liu, X, Murata, K, Nagayama, K, Rixon, FJ, Chiu, W. Journal of virology
Structural basis for scaffolding-mediated assembly and maturation of a dsDNA virus. (2011) Chen, DH, Baker, ML, Hryc, CF, DiMaio, F, Jakana, J, Wu, W, Dougherty, M, Haase-Pettingell, C, Schmid, MF, Jiang, W, Baker, D, King, JA, Chiu, W. Proceedings of the National Academy of Sciences of the United States of America
Dual action of ATP hydrolysis couples lid closure to substrate release into the group II chaperonin chamber. (2011) Douglas, NR, Reissmann, S, Zhang, J, Chen, B, Jakana, J, Kumar, R, Chiu, W, Frydman, J. Cell
EMDataBank.org: unified data resource for CryoEM. (2011) Lawson, CL, Baker, ML, Best, C, Bi, C, Dougherty, M, Feng, P, van Ginkel, G, Devkota, B, Lagerstedt, I, Ludtke, SJ, Newman, RH, Oldfield, TJ, Rees, I, Sahni, G, Sala, R, Velankar, S, Warren, J, Westbrook, JD, Henrick, K, Kleywegt, GJ, Berman, HM, Chiu, W. Nucleic acids research
Functional and structural studies of TRP channels heterologously expressed in budding yeast. (2011) Moiseenkova-Bell, V, Wensel, TG. Advances in experimental medicine and biology
The group II chaperonin Mm-Cpn binds and refolds human γD crystallin. (2011) Knee, KM, Goulet, DR, Zhang, J, Chen, B, Chiu, W, King, JA. Protein science : a publication of the Protein Society
Single-particle electron cryotomography (cryoET). (2011) Schmid, MF. Advances in protein chemistry and structural biology

2010

Structure of a conserved retroviral RNA packaging element by NMR spectroscopy and cryo-electron tomography. (2010) Miyazaki, Y, Irobalieva, RN, Tolbert, BS, Smalls-Mantey, A, Iyalla, K, Loeliger, K, D'Souza, V, Khant, H, Schmid, MF, Garcia, EL, Telesnitsky, A, Chiu, W, Summers, MF. Journal of molecular biology
Workshop on molecular animation. (2010) Bromberg, S, Chiu, W, Ferrin, TE. Structure (London, England : 1993)
Visualizing the structural changes of bacteriophage Epsilon15 and its Salmonella host during infection. (2010) Chang, JT, Schmid, MF, Haase-Pettingell, C, Weigele, PR, King, JA, Chiu, W. Journal of molecular biology
Cryo-EM of macromolecular assemblies at near-atomic resolution. (2010) Baker, ML, Zhang, J, Ludtke, SJ, Chiu, W. Nature protocols
Zernike phase contrast cryo-electron microscopy and tomography for structure determination at nanometer and subnanometer resolutions. (2010) Murata, K, Liu, X, Danev, R, Jakana, J, Schmid, MF, King, J, Nagayama, K, Chiu, W. Structure (London, England : 1993)
Structural changes in a marine podovirus associated with release of its genome into Prochlorococcus. (2010) Liu, X, Zhang, Q, Murata, K, Baker, ML, Sullivan, MB, Fu, C, Dougherty, MT, Schmid, MF, Osburne, MS, Chisholm, SW, Chiu, W. Nature structural & molecular biology
MOTIF-EM: an automated computational tool for identifying conserved regions in CryoEM structures. (2010) Saha, M, Levitt, M, Chiu, W. Bioinformatics (Oxford, England)
Quantitative analysis of cryo-EM density map segmentation by watershed and scale-space filtering, and fitting of structures by alignment to regions. (2010) Pintilie, GD, Zhang, J, Goddard, TD, Chiu, W, Gossard, DC. Journal of structural biology
CryoEM structure of Hsp104 and its mechanistic implication for protein disaggregation. (2010) Lee, S, Sielaff, B, Lee, J, Tsai, FT. Proceedings of the National Academy of Sciences of the United States of America
Electron microscopy, immunostaining, cytoskeleton visualization, in situ hybridization, and three-dimensional reconstruction of Xenopus oocytes. (2010) Bilinski, SM, Jaglarz, MK, Dougherty, MT, Kloc, M. Methods (San Diego, Calif.)
4.0-A resolution cryo-EM structure of the mammalian chaperonin TRiC/CCT reveals its unique subunit arrangement. (2010) Cong, Y, Baker, ML, Jakana, J, Woolford, D, Miller, EJ, Reissmann, S, Kumar, RN, Redding-Johanson, AM, Batth, TS, Mukhopadhyay, A, Ludtke, SJ, Frydman, J, Chiu, W. Proceedings of the National Academy of Sciences of the United States of America
Radiation damage effects at four specimen temperatures from 4 to 100 K. (2010) Bammes, BE, Jakana, J, Schmid, MF, Chiu, W. Journal of structural biology
Automated pipeline for atlas-based annotation of gene expression patterns: application to postnatal day 7 mouse brain. (2010) Carson, J, Ju, T, Bello, M, Thaller, C, Warren, J, Kakadiaris, IA, Chiu, W, Eichele, G. Methods (San Diego, Calif.)
Mechanism of folding chamber closure in a group II chaperonin. (2010) Zhang, J, Baker, ML, Schröder, GF, Douglas, NR, Reissmann, S, Jakana, J, Dougherty, M, Fu, CJ, Levitt, M, Ludtke, SJ, Frydman, J, Chiu, W. Nature
Model of human low-density lipoprotein and bound receptor based on cryoEM. (2010) Ren, G, Rudenko, G, Ludtke, SJ, Deisenhofer, J, Chiu, W, Pownall, HJ. Proceedings of the National Academy of Sciences of the United States of America
Automated specimen search in cryo-TEM observation with DIFF-defocus imaging. (2010) Nakamura, N, Shimizu, Y, Shinkawa, T, Nakata, M, Bammes, B, Zhang, J, Chiu, W. Journal of electron microscopy
Tracing conformational changes in proteins. (2010) Haspel, N, Moll, M, Baker, ML, Chiu, W, Kavraki, LE. BMC structural biology
Rotavirus cell entry. (2010) Baker, M, Prasad, BV. Current topics in microbiology and immunology
Semi-isometric registration of line features for flexible fitting of protein structures. (2010) Abeysinghe, S, Baker, ML, Chiu, W, Ju, T. Computer graphics forum : journal of the European Association for Computer Graphics
Analyses of subnanometer resolution cryo-EM density maps. (2010) Baker, ML, Baker, MR, Hryc, CF, Dimaio, F. Methods in enzymology

2009

Refinement of protein structures into low-resolution density maps using rosetta. (2009) DiMaio, F, Tyka, MD, Baker, ML, Chiu, W, Baker, D. Journal of molecular biology
Characterization of antibiotic peptide pores using cryo-EM and comparison to neutron scattering. (2009) Han, M, Mei, Y, Khant, H, Ludtke, SJ. Biophysical journal
Structural mechanism of SDS-induced enzyme activity of scorpion hemocyanin revealed by electron cryomicroscopy. (2009) Cong, Y, Zhang, Q, Woolford, D, Schweikardt, T, Khant, H, Dougherty, M, Ludtke, SJ, Chiu, W, Decker, H. Structure (London, England : 1993)
Identifying Components in 3D Density Maps of Protein Nanomachines by Multi-scale Segmentation. (2009) Pintilie, G, Zhang, J, Chiu, W, Gossard, D. IEEE/NIH Life Science Systems and Applications Workshop. IEEE/NIH Life Science Systems and Applications Workshop
Interprotofilament interactions between Alzheimer's Abeta1-42 peptides in amyloid fibrils revealed by cryoEM. (2009) Zhang, R, Hu, X, Khant, H, Ludtke, SJ, Chiu, W, Schmid, MF, Frieden, C, Lee, JM. Proceedings of the National Academy of Sciences of the United States of America
Hot on the trail of TRP channel structure. (2009) Moiseenkova-Bell, VY, Wensel, TG. The Journal of general physiology
Estimating contrast transfer function and associated parameters by constrained non-linear optimization. (2009) Yang, C, Jiang, W, Chen, DH, Adiga, U, Ng, EG, Chiu, W. Journal of microscopy
Disruption of human plasma high-density lipoproteins by streptococcal serum opacity factor requires labile apolipoprotein A-I. (2009) Han, M, Gillard, BK, Courtney, HS, Ward, K, Rosales, C, Khant, H, Ludtke, SJ, Pownall, HJ. Biochemistry
Ryanodine receptor structure: progress and challenges. (2009) Hamilton, SL, Serysheva, II. The Journal of biological chemistry
Rotavirus architecture at subnanometer resolution. (2009) Li, Z, Baker, ML, Jiang, W, Estes, MK, Prasad, BV. Journal of virology
JADAS: a customizable automated data acquisition system and its application to ice-embedded single particles. (2009) Zhang, J, Nakamura, N, Shimizu, Y, Liang, N, Liu, X, Jakana, J, Marsh, MP, Booth, CR, Shinkawa, T, Nakata, M, Chiu, W. Journal of structural biology

2008

X-ray structure of NS1 from a highly pathogenic H5N1 influenza virus. (2008) Bornholdt, ZA, Prasad, BV. Nature
Redox-triggered contents release from liposomes. (2008) Ong, W, Yang, Y, Cruciano, AC, McCarley, RL. Journal of the American Chemical Society
Mouse early oocytes are transiently polar: three-dimensional and ultrastructural analysis. (2008) Kloc, M, Jaglarz, M, Dougherty, M, Stewart, MD, Nel-Themaat, L, Bilinski, S. Experimental cell research
Location and flexibility of the unique C-terminal tail of Aquifex aeolicus co-chaperonin protein 10 as derived by cryo-electron microscopy and biophysical techniques. (2008) Chen, DH, Luke, K, Zhang, J, Chiu, W, Wittung-Stafshede, P. Journal of molecular biology
Signal transducing membrane complexes of photoreceptor outer segments. (2008) Wensel, TG. Vision research
Subnanometer-resolution electron cryomicroscopy-based domain models for the cytoplasmic region of skeletal muscle RyR channel. (2008) Serysheva, II, Ludtke, SJ, Baker, ML, Cong, Y, Topf, M, Eramian, D, Sali, A, Hamilton, SL, Chiu, W. Proceedings of the National Academy of Sciences of the United States of America
Remotely triggered liposome release by near-infrared light absorption via hollow gold nanoshells. (2008) Wu, G, Mikhailovsky, A, Khant, HA, Fu, C, Chiu, W, Zasadzinski, JA. Journal of the American Chemical Society
Achievable resolution from images of biological specimens acquired from a 4k x 4k CCD camera in a 300-kV electron cryomicroscope. (2008) Chen, DH, Jakana, J, Liu, X, Schmid, MF, Chiu, W. Journal of structural biology
Mechanism of lid closure in the eukaryotic chaperonin TRiC/CCT. (2008) Booth, CR, Meyer, AS, Cong, Y, Topf, M, Sali, A, Ludtke, SJ, Chiu, W, Frydman, J. Nature structural & molecular biology
Structure of TRPV1 channel revealed by electron cryomicroscopy. (2008) Moiseenkova-Bell, VY, Stanciu, LA, Serysheva, II, Tobe, BJ, Wensel, TG. Proceedings of the National Academy of Sciences of the United States of America
Functional maturation of the human antibody response to rotavirus. (2008) Kallewaard, NL, McKinney, BA, Gu, Y, Chen, A, Prasad, BV, Crowe, JE. Journal of immunology (Baltimore, Md. : 1950)
Methods for aligning and for averaging 3D volumes with missing data. (2008) Schmid, MF, Booth, CR. Journal of structural biology
De novo backbone trace of GroEL from single particle electron cryomicroscopy. (2008) Ludtke, SJ, Baker, ML, Chen, DH, Song, JL, Chuang, DT, Chiu, W. Structure (London, England : 1993)
Backbone structure of the infectious epsilon15 virus capsid revealed by electron cryomicroscopy. (2008) Jiang, W, Baker, ML, Jakana, J, Weigele, PR, King, J, Chiu, W. Nature
Cryo-electron microscopy of coagulation Factor VIII bound to lipid nanotubes. (2008) Parmenter, CD, Cane, MC, Zhang, R, Stoilova-McPhie, S. Biochemical and biophysical research communications
Protein structure fitting and refinement guided by cryo-EM density. (2008) Topf, M, Lasker, K, Webb, B, Wolfson, H, Chiu, W, Sali, A. Structure (London, England : 1993)
Crystallographic conformers of actin in a biologically active bundle of filaments. (2008) Cong, Y, Topf, M, Sali, A, Matsudaira, P, Dougherty, M, Chiu, W, Schmid, MF. Journal of molecular biology

2007

Ribosome binding of a single copy of the SecY complex: implications for protein translocation. (2007) Ménétret, JF, Schaletzky, J, Clemons, WM, Osborne, AR, Skånland, SS, Denison, C, Gygi, SP, Kirkpatrick, DS, Park, E, Ludtke, SJ, Rapoport, TA, Akey, CW. Molecular cell
Modular software platform for low-dose electron microscopy and tomography. (2007) Marsh, MP, Chang, JT, Booth, CR, Liang, NL, Schmid, MF, Chiu, W. Journal of microscopy
Averaging tens to hundreds of icosahedral particle images to resolve protein secondary structure elements using a Multi-Path Simulated Annealing optimization algorithm. (2007) Liu, X, Jiang, W, Jakana, J, Chiu, W. Journal of structural biology
Biophysical methods: structure, dynamics and gorgeous images. (2007) Chiu, W, Moffat, K. Current opinion in structural biology
Genome sequence, structural proteins, and capsid organization of the cyanophage Syn5: a "horned" bacteriophage of marine synechococcus. (2007) Pope, WH, Weigele, PR, Chang, J, Pedulla, ML, Ford, ME, Houtz, JM, Jiang, W, Chiu, W, Hatfull, GF, Hendrix, RW, King, J. Journal of molecular biology
Organization of cytokeratin cytoskeleton and germ plasm in the vegetal cortex of Xenopus laevis oocytes depends on coding and non-coding RNAs: three-dimensional and ultrastructural analysis. (2007) Kloc, M, Bilinski, S, Dougherty, MT. Experimental cell research
Essential function of the built-in lid in the allosteric regulation of eukaryotic and archaeal chaperonins. (2007) Reissmann, S, Parnot, C, Booth, CR, Chiu, W, Frydman, J. Nature structural & molecular biology
Computing a family of skeletons of volumetric models for shape description. (2007) Ju, T, Baker, ML, Chiu, W. Computer aided design
Learning-based segmentation framework for tissue images containing gene expression data. (2007) Bello, M, Ju, T, Carson, J, Warren, J, Chiu, W, Kakadiaris, IA. IEEE transactions on medical imaging
DNA packaging and delivery machines in tailed bacteriophages. (2007) Johnson, JE, Chiu, W. Current opinion in structural biology
Electron cryotomography reveals the portal in the herpesvirus capsid. (2007) Chang, JT, Schmid, MF, Rixon, FJ, Chiu, W. Journal of virology
Visualizing the ATPase cycle in a protein disaggregating machine: structural basis for substrate binding by ClpB. (2007) Lee, S, Choi, JM, Tsai, FT. Molecular cell
SPARX, a new environment for Cryo-EM image processing. (2007) Hohn, M, Tang, G, Goodyear, G, Baldwin, PR, Huang, Z, Penczek, PA, Yang, C, Glaeser, RM, Adams, PD, Ludtke, SJ. Journal of structural biology
Single-particle electron cryomicroscopy of the ion channels in the excitation-contraction coupling junction. (2007) Serysheva, II, Chiu, W, Ludtke, SJ. Methods in cell biology
Cryoelectron microscopy of icosahedral virus particles. (2007) Jiang, W, Chiu, W. Methods in molecular biology (Clifton, N.J.)
Identification of secondary structure elements in intermediate-resolution density maps. (2007) Baker, ML, Ju, T, Chiu, W. Structure (London, England : 1993)
EMAN2: an extensible image processing suite for electron microscopy. (2007) Tang, G, Peng, L, Baldwin, PR, Mann, DS, Jiang, W, Rees, I, Ludtke, SJ. Journal of structural biology

2006

Cryoelectron microscopy of protein IX-modified adenoviruses suggests a new position for the C terminus of protein IX. (2006) Marsh, MP, Campos, SK, Baker, ML, Chen, CY, Chiu, W, Barry, MA. Journal of virology
Automated segmentation of molecular subunits in electron cryomicroscopy density maps. (2006) Baker, ML, Yu, Z, Chiu, W, Bajaj, C. Journal of structural biology
Structure of Halothiobacillus neapolitanus carboxysomes by cryo-electron tomography. (2006) Schmid, MF, Paredes, AM, Khant, HA, Soyer, F, Aldrich, HC, Chiu, W, Shively, JM. Journal of molecular biology
Assessing the capabilities of a 4kx4k CCD camera for electron cryo-microscopy at 300kV. (2006) Booth, CR, Jakana, J, Chiu, W. Journal of structural biology
An expanded conformation of single-ring GroEL-GroES complex encapsulates an 86 kDa substrate. (2006) Chen, DH, Song, JL, Chuang, DT, Chiu, W, Ludtke, SJ. Structure (London, England : 1993)
Cryoelectron microscopy structures of rotavirus NSP2-NSP5 and NSP2-RNA complexes: implications for genome replication. (2006) Jiang, X, Jayaram, H, Kumar, M, Ludtke, SJ, Estes, MK, Prasad, BV. Journal of virology
Ab initio modeling of the herpesvirus VP26 core domain assessed by CryoEM density. (2006) Baker, ML, Jiang, W, Wedemeyer, WJ, Rixon, FJ, Baker, D, Chiu, W. PLoS computational biology
3D volume reconstruction of a mouse brain from histological sections using warp filtering. (2006) Ju, T, Warren, J, Carson, J, Bello, M, Kakadiaris, I, Chiu, W, Thaller, C, Eichele, G. Journal of neuroscience methods
Outcome of a workshop on archiving structural models of biological macromolecules. (2006) Berman, HM, Burley, SK, Chiu, W, Sali, A, Adzhubei, A, Bourne, PE, Bryant, SH, Dunbrack, RL, Fidelis, K, Frank, J, Godzik, A, Henrick, K, Joachimiak, A, Heymann, B, Jones, D, Markley, JL, Moult, J, Montelione, GT, Orengo, C, Rossmann, MG, Rost, B, Saibil, H, Schwede, T, Standley, DM, Westbrook, JD. Structure (London, England : 1993)
Cryo-EM asymmetric reconstruction of bacteriophage P22 reveals organization of its DNA packaging and infecting machinery. (2006) Chang, J, Weigele, P, King, J, Chiu, W, Jiang, W. Structure (London, England : 1993)
Refinement of protein structures by iterative comparative modeling and CryoEM density fitting. (2006) Topf, M, Baker, ML, Marti-Renom, MA, Chiu, W, Sali, A. Journal of molecular biology
Close membrane-membrane proximity induced by Ca(2+)-dependent multivalent binding of synaptotagmin-1 to phospholipids. (2006) Araç, D, Chen, X, Khant, HA, Ubach, J, Ludtke, SJ, Kikkawa, M, Johnson, AE, Chiu, W, Südhof, TC, Rizo, J. Nature structural & molecular biology
Structural biology of cellular machines. (2006) Chiu, W, Baker, ML, Almo, SC. Trends in cell biology
Structure of epsilon15 bacteriophage reveals genome organization and DNA packaging/injection apparatus. (2006) Jiang, W, Chang, J, Jakana, J, Weigele, P, King, J, Chiu, W. Nature
High-resolution molecular and antigen structure of the VP8* core of a sialic acid-independent human rotavirus strain. (2006) Monnier, N, Higo-Moriguchi, K, Sun, ZY, Prasad, BV, Taniguchi, K, Dormitzer, PR. Journal of virology

2005

Structural analysis of the anaphase-promoting complex reveals multiple active sites and insights into polyubiquitylation. (2005) Passmore, LA, Booth, CR, Vénien-Bryan, C, Ludtke, SJ, Fioretto, C, Johnson, LN, Chiu, W, Barford, D. Molecular cell
Common ancestry of herpesviruses and tailed DNA bacteriophages. (2005) Baker, ML, Jiang, W, Rixon, FJ, Chiu, W. Journal of virology
Mutational analysis of the SARS virus Nsp15 endoribonuclease: identification of residues affecting hexamer formation. (2005) Guarino, LA, Bhardwaj, K, Dong, W, Sun, J, Holzenburg, A, Kao, C. Journal of molecular biology
ERj1p uses a universal ribosomal adaptor site to coordinate the 80S ribosome at the membrane. (2005) Blau, M, Mullapudi, S, Becker, T, Dudek, J, Zimmermann, R, Penczek, PA, Beckmann, R. Nature structural & molecular biology
A structure of the human apoptosome at 12.8 A resolution provides insights into this cell death platform. (2005) Yu, X, Acehan, D, Ménétret, JF, Booth, CR, Ludtke, SJ, Riedl, SJ, Shi, Y, Wang, X, Akey, CW. Structure (London, England : 1993)
Fast rotational matching of single-particle images. (2005) Cong, Y, Jiang, W, Birmanns, S, Zhou, ZH, Chiu, W, Wriggers, W. Journal of structural biology
Electron cryomicroscopy of single particles at subnanometer resolution. (2005) Jiang, W, Ludtke, SJ. Current opinion in structural biology
A digital atlas to characterize the mouse brain transcriptome. (2005) Carson, JP, Ju, T, Lu, HC, Thaller, C, Xu, M, Pallas, SL, Crair, MC, Warren, J, Chiu, W, Eichele, G. PLoS computational biology
Superparamagnetic gadonanotubes are high-performance MRI contrast agents. (2005) Sitharaman, B, Kissell, KR, Hartman, KB, Tran, LA, Baikalov, A, Rusakova, I, Sun, Y, Khant, HA, Ludtke, SJ, Chiu, W, Laus, S, Tóth, E, Helm, L, Merbach, AE, Wilson, LJ. Chemical communications (Cambridge, England)
The pore structure of the closed RyR1 channel. (2005) Ludtke, SJ, Serysheva, II, Hamilton, SL, Chiu, W. Structure (London, England : 1993)
Architecture of the ribosome-channel complex derived from native membranes. (2005) Ménétret, JF, Hegde, RS, Heinrich, SU, Chandramouli, P, Ludtke, SJ, Rapoport, TA, Akey, CW. Journal of molecular biology
Electron cryomicroscopy of biological machines at subnanometer resolution. (2005) Chiu, W, Baker, ML, Jiang, W, Dougherty, M, Schmid, MF. Structure (London, England : 1993)
Structural characterization of components of protein assemblies by comparative modeling and electron cryo-microscopy. (2005) Topf, M, Baker, ML, John, B, Chiu, W, Sali, A. Journal of structural biology
Structure of Ca2+ release channel at 14 A resolution. (2005) Serysheva, II, Hamilton, SL, Chiu, W, Ludtke, SJ. Journal of molecular biology
Delivery of germinal granules and localized RNAs via the messenger transport organizer pathway to the vegetal cortex of Xenopus oocytes occurs through directional expansion of the mitochondrial cloud. (2005) Wilk, K, Bilinski, S, Dougherty, MT, Kloc, M. The International journal of developmental biology
Structural biology of old world and new world alphaviruses. (2005) Paredes, A, Weaver, S, Watowich, S, Chiu, W. Archives of virology. Supplementum

2004

Structure of the acrosomal bundle. (2004) Schmid, MF, Sherman, MB, Matsudaira, P, Chiu, W. Nature
Structural rearrangements in the membrane penetration protein of a non-enveloped virus. (2004) Dormitzer, PR, Nason, EB, Prasad, BV, Harrison, SC. Nature
How a G protein binds a membrane. (2004) Zhang, Z, Melia, TJ, He, F, Yuan, C, McGough, A, Schmid, MF, Wensel, TG. The Journal of biological chemistry
Structure of the bifunctional and Golgi-associated formiminotransferase cyclodeaminase octamer. (2004) Mao, Y, Vyas, NK, Vyas, MN, Chen, DH, Ludtke, SJ, Chiu, W, Quiocho, FA. The EMBO journal
A 9 angstroms single particle reconstruction from CCD captured images on a 200 kV electron cryomicroscope. (2004) Booth, CR, Jiang, W, Baker, ML, Zhou, ZH, Ludtke, SJ, Chiu, W. Journal of structural biology
Interactions between the inner and outer capsids of bluetongue virus. (2004) Nason, EL, Rothagel, R, Mukherjee, SK, Kar, AK, Forzan, M, Prasad, BV, Roy, P. Journal of virology
Mitochondrial ATP synthasome: three-dimensional structure by electron microscopy of the ATP synthase in complex formation with carriers for Pi and ADP/ATP. (2004) Chen, C, Ko, Y, Delannoy, M, Ludtke, SJ, Chiu, W, Pedersen, PL. The Journal of biological chemistry
Seeing GroEL at 6 A resolution by single particle electron cryomicroscopy. (2004) Ludtke, SJ, Chen, DH, Song, JL, Chuang, DT, Chiu, W. Structure (London, England : 1993)
Conformational changes in Sindbis virions resulting from exposure to low pH and interactions with cells suggest that cell penetration may occur at the cell surface in the absence of membrane fusion. (2004) Paredes, AM, Ferreira, D, Horton, M, Saad, A, Tsuruta, H, Johnston, R, Klimstra, W, Ryman, K, Hernandez, R, Chiu, W, Brown, DT. Virology
Experimental verification of conformational variation of human fatty acid synthase as predicted by normal mode analysis. (2004) Brink, J, Ludtke, SJ, Kong, Y, Wakil, SJ, Ma, J, Chiu, W. Structure (London, England : 1993)
Formation, architecture and polarity of female germline cyst in Xenopus. (2004) Kloc, M, Bilinski, S, Dougherty, MT, Brey, EM, Etkin, LD. Developmental biology

2001

A 11.5 A single particle reconstruction of GroEL using EMAN. (2001) Ludtke, SJ, Jakana, J, Song, JL, Chuang, DT, Chiu, W. Journal of molecular biology
Cross-correlation and merging of crystallographic reflections derived from cryoelectron micrographs of 3D crystals: application to the Limulus acrosomal bundle. (2001) Schmid, MF. Journal of structural biology
Automatic particle selection: results of a comparative study. (2001) Zhu, Y, Carragher, B, Glaeser, RM, Fellmann, D, Bajaj, C, Bern, M, Mouche, F, de Haas, F, Hall, RJ, Kriegman, DJ, Ludtke, SJ, Mallick, SP, Penczek, PA, Roseman, AM, Sigworth, FJ, Volkmann, N, Potter, CS. Journal of structural biology