Core
- Zhu, Y., Carragher, B., Glaeser, R.M., Fellmann, D., Bajaj, C., Bern, M., Mouche, F., de Haas, F., Hall, R.J., Kriegman, D.J., Ludtke, S.J., Mallick, S.P., Penczek, P.A., Roseman, A.M., Sigworth, F.J., Volkmann, N., and Potter, C.S. (2004). Automatic particle selection: results of a comparative study. J Struct Biol 145, 3-14.
- Brink, J., Ludtke, S.J., Kong, Y., Wakil, S., Ma, J. and Chiu, W. (2004). Experimental verification of conformational variation of human fatty acid synthase as predicted by normal mode analysis. Structure 12: 185-91.
- Booth, C. R., Jiang, W., Baker, M. L., Hong Zhou, Z., Ludtke, S. J., and Chiu, W. (2004). A 9 Å single particle reconstruction from CCD captured images on a 200kV electron cryomicroscope. J Struct Biol 147, 116-127.
- Ludtke, S. J., Chen, D. H., Song, J. L., Chuang, D. T., and Chiu, W. (2004). Seeing GroEL at 6 Å resolution by single particle electron cryomicroscopy. Structure 12, 1129-1136.
- Schmid, M.F., Sherman, M., Matsudaira, P. and Chiu, W. (2004). Structure of the acrosomal bundle. Nature, 431, 104-107.
- Wan, Y., Hong, Z. H., Chiu, W. (2004). Full Contrast Transfer Function Correction in 3D Cryo-EM Reconstruction, IEEE International Conference on Communications, Circuits and Systems, Chengdu, China, III, pp. 501-504.
- Topf, M., M.L. Baker, B. John, W. Chiu, and A. Sali (2005). Structural characterization of components of protein assemblies by comparative modeling and electron cryo-microscopy. J Struct Biol. 149:191-203.
- Cong, Y., W. Jiang, S. Birmanns, Z.H. Zhou, W. Chiu, and W. Wriggers (2005). Fast rotational matching of single particle images. J Struct Biol:152:104-112.
- Topf, M., Baker, M. L., Marti-Renom, M. A., Chiu, W. & Sali, A. (2006). Refinement of protein structures by iterative comparative modeling and cryoEM density fitting. J Mol Biol 357: 1655-68.
- Baker, M.L., Z. Yu, W. Chiu, and C. Bajaj. (2006). Automated segmentation of molecular subunits in electron cryomicroscopy density maps. J Struct Biol. 156: 432-41
- Booth, C. R., J. Jakana, and W. Chiu (2006). Assessing the capabilities of a 4kx4k CCD camera for electron cryo-microscopy at 300kV. J Struct Biol 156:556-563.
- Baker, M. L., Jiang, W., Wedemeyer, W. J., Rixon, F. J., Baker, D. and Chiu, W. (2006). Ab initio modeling of the Herpesvirus VP26 core domain assessed by cryoEM density. PLoS Comput Biol 2(11): e146.
- Tang, G., Peng, L., Baldwin, P. R., Mann, D. S., Jiang, W., Rees, I., and Ludtke, S. J. (2007). EMAN2: An extensible image processing suite for electron microscopy. J Struct Biol. 157: 38-46.
- Hohn, M., G. Tang, G. Goodyear, P.R. Baldwin, Z. Huang, P.A. Penczek, C. Yang, R.M. Glaeser, P.D. Adams, and S.J. Ludtke (2007). SPARX, a new environment for Cryo-EM image processing. J Struct Biol 157(1): p. 47-55.
- Baker, M.L., Ju, T. and Chiu, W. (2007). Identification of secondary structure elements in intermediate resolution density maps. Structure, 15:7-19.
- Ju, T., Baker, M.L. and Chiu, W. (2007). Computing a family of skeletons of volumetric models for shape description. Computer-AIDED Design, 39:352-360.
- Liu, X., Jiang, W., Jakana, J. and Chiu, W. (2007). Averaging tens to hundreds of icosahedral particle images to resolve protein secondary structure elements using a Multi-path Simulated Annealing optimization algorithm. J Struct Biol, 160: 11-27.
- Michael P. Marsh, Juan T. Chang, Christopher R. Booth, Nathan L. Liang, Michael F. Schmid, Wah Chiu (2007). Modular software platform for low-dose electron microscopy and tomography. J Microsc, 228: 384-89.
- Chen, D.H., Jakana, J. and Chiu, W. (2007). Single-particle cryo-EM data collected on a 300-kV liquid helium-cooled electron cryomicroscope. J Chinese Elec Microsc Soc 26: 473-479.
- Cong, Y., M. Topf, A. Sali, P. Matsudaira, M. Dougherty, W. Chiu, and M.F. Schmid (2008). Crystallographic conformers of actin in a biologically active bundle of filaments. J Mol Biol 375: 331-6.
- Schmid, M.F., and C.R. Booth (2008). Methods for aligning and for averaging 3D volumes with missing data. J Struct Biol 161: 243-8.
- Topf, M., K. Lasker, B. Webb, H. Wolfson, W. Chiu, and A. Sali (2008). Protein structure fitting and refinement guided by cryo-EM density. Structure 16: 295-307.
- Ludtke, S.J., M.L. Baker, D.H. Chen, J.L. Song, D.T. Chuang, and W. Chiu (2008). De Novo Backbone trace of GroEL from single particle electron cryomicroscopy. Structure 16: 441-8.
- Jiang, W., M.L. Baker, J. Jakana, P.R. Weigele, J. King, and W. Chiu (2008). Backbone structure of the infectious epsilon15 virus capsid revealed by electron cryomicroscopy. Nature 451: 1130-4.
- Chen, D.H., J. Jakana, X. Liu, M.F. Schmid, and W. Chiu (2008). Achievable resolution from images of biological specimens acquired from a 4kx4k CCD camera in a 300-kV electron cryomicroscope. J Struct Biol 163: 45-52.
- Abeysinghe, S., Ju, T., Baker, M. L., Chiu, W. (2008). Shape modeling and matching in identifying protein structure from low-resolution images. Computer-AIDED Design: in press.
- Yang, C., Jiang, W., Chen, D.H., Umesh, A., Ng, E. G. and Chiu, W. (2008). Estimating contrast transfer function and associated parameters by constrained nonlinear optimization. J Microsc submitted.
- Zhang, J., N. Nakamura, Y. Shimizu, N. Liang, X. Liu, J. Jakana, M.P. Marsh, C.R. Booth, T. Shinkawa, M. Nakata, and W. Chiu (2008). JADAS: A customizable automated cryo-EM data acquisition system and its application to ice-embedded single particles. J Struct Biol submitted.
