Jose, J., J. Tang, A. B. Taylor, T. S. Baker, and R. J. Kuhn (2015) Fluorescent protein-tagged Sindbis Virus E2 glycoprotein allows single particle analysis of virus budding from live cells. Viruses 7:6182-99. (PDF)

Tseng, Y. S., B. L. Gurda, P. Chipman, R. McKenna, S. Afione, J. A. Chiorini, N. Muzyczka, N. H. Olson, T. S. Baker, J. Leinschmidt, and M. Agbandje-McKenna (2015) Adeno-Associated Virus serotype 1 (AAV1)- and AAV5-antibody complex structures reveal evolutionary commonalities in parvovirus antigenic reactivity. J. Virol. 89:1794-807. (PDF)

Janssen, M. E., Y. Takagi, K. N. Parent, G. Cardone, M. L. Nibert, and T. S. Baker (2015) Three-Dimensional structure of a protozoal double-stranded RNA virus that infects the enteric pathogen Giardia lamblia. J. Virol. 89:1182-94. (PDF)

Xiao, X., J. Cheng, J. Tang, Y. Fu, D. Jiang, T. S. Baker, S. A. Ghabrial, and J. Xie (2014) A novel partitivirus that confers hypovirulence on plant pathogenic fungi. J. Virol. 88:10120-33. (PDF)

Parent, K. N., M. L. Erb, G. Cardone, K. Nguyen, E. B. Gilcrease, N. B. Porcek, J. Pogliano, T. S. Baker, and S. R. Casjens (2014) OmpA and OmpC are critical host factors for bacteriophage Sf6 entry in Shigella. Mol. Microbiol. 92:47-60. (PDF)

Parent, K. N., J. Tang, G. Cardone, E. B. Gilcrease, M. E. Janssen, N. H. Olson, S. R. Casjens, and T. S. Baker (2014) Three-dimensional reconstructions of the bacteriophage CUS-3 virion reveal a conserved coat protein I-domain but a distinct tailspike receptor-binding domain. Virology 464-465:55-66. (PDF)

Tang, J., B. M. Kearney, Q. Wang, P. C. Doerschuk, T. S. Baker, and J. E. Johnson (2014) Dynamic and geometric analyses of Nudaurelia capensis ω virus maturation reveal the energy landscape of particle transitions. J. Mol. Recognit. 27:230-237.  (PDF)

Yan, X., G. Cardone, X. Zhang, Z. H. Zhou, and T. S. Baker (2014) Single particle analysis integrated with microscopy: A high-throughput approach for reconstructing icosahedral particles. J. Struct. Biol. 186:8-18.  (PDF)

Cardone, G., X. Yan, R. S. Sinkovits, J. Tang, and T. S. Baker (2013) Three-dimensional reconstruction of icosahedral particles from single micrographs in real time at the microscope. J. Struct. Biol. 183:329-341.  (PDF)

Dunn, S. E., H. Li, G. Cardone, M. L. Nibert, S. A. Ghabrial, and T. S. Baker (2013) Three-dimensional structure of victorivirus HvV190S suggests coat proteins in most totiviruses share a conserved core. PLoS Pathog 9(3): e1003225. doi:10.1371/journal.ppat.1003225. (PDF)

Gurda, B. L., M. A. DiMattia, E. B. Miller, A. Bennett, R. McKenna, W. S. Weichert, C. D. Nelson, W. J. Chen, N. Muzyczka, N. H. Olson, R. S. Sinkovits, J. A. Chiorini, S. Zolotutkhin, O. G. Kozyreva, R. J. Samulski, T. S. Baker, C. R. Parrish, and M. Agbandje-McKennaa (2013) Capsid antibodies to different adeno-associated virus serotypes bind common regions. J. Virol. 87:9111-9124. (PDF)

Parent, K. N., Y. Takagi, G. Cardone, N. H. Olson, M. Ericsson, M. Yang, Y. Lee, J. M. Asara, R. N. Fichorova, T. S. Baker, and M. L. Nibert (2013) Structure of a protozoan virus from the human genitourinary parasite Trichomonas vaginalis. mBio. 4: doi:10.1128/mBio.00056-13. (PDF)

Wang X, F. Xu, J. Liu, B Gao, Y. Liu, Y. Zhai, J. Ma, K. Zhang, T. S. Baker, K Schulten, D. Zheng, and F. Sun (2013) Atomic model of rabbit hemorrhagic disease virus by cryo-electron microscopy and crystallography. PLoS Pathog 9(1): e1003132. doi:10.1371/journal.ppat.1003132. (PDF)

Brodin, J. D., X. I. Ambroggio, C. Tang, K. N. Parent, T. S. Baker, and F. A. Tezcan (2012) Metal-directed, chemically tunable assembly of one-, two- and three-dimensional crystalline protein arrays. Nat. Chem. 4:375-382. (PDF)

DiMattia, M. A., H.-J. Nama, K. V. Vlieta, M. Mitchella, A. Bennetta, B. L. Gurda, R. McKenna, N. H. Olson, R. S. Sinkovits, M Potterc, B. J. Byrnec, G Aslanidic, S. Zolotukhinc, N. Muzcyczkad, T. S. Baker, M. Agbandje-McKenna (2012) Structural insight into the unique properties of adeno-associated virus serotype 9. J. Virol. 86:6947-6958.  (PDF)

Gurda, B. L., C. Raupp, R. Popa-Wagner, M. Naumer, N. H. Olson, R. Ng, R. McKenna, T. S. Baker, J. A. Kleinschmidt, and M. Agbandje-McKenna (2012) Mapping a neutralizing epitope onto the capsid of adeno-associated virus serotype 8. J. Virol. 86:7739-7751. (PDF)

Parent, K. N., C. T. Deedas, E. H. Egelman, S. R. Casjens, T. S. Baker, and C. M. Teschke (2012) Stepwise molecular display utilizing icosahedral and helical complexes of phage coat and decoration proteins in the development of robust nanoscale display vehicles. Biomaterials 33:5628-5637. (PDF)

Parent, K. N., E. B. Gilcrease, S. R. Casjens, and T. S. Baker (2012). Structural evolution of the P22-like phages: Comparison of Sf6 and P22 procapsid and virion architectures. Virology 427:177-188.  (PDF)

Ku, T.-H., M.-P. Chien, M. P. Thompson, R. S. Sinkovits, N. H. Olson, T. S. Baker, and N. C. Gianneschi (2011). Controlling and switching the morphology of micellar nanoparticles with enzymes. J. Am. Chem. Soc. 133:8392-8395.  (PDF)

Shen, P. S., D. Enderlein, C. D. S. Nelson, W. S. Carter, M. Kawano, L. Xing, R. D. Swenson, N. H. Olson, T. S. Baker, R. H. Cheng, W. J. Atwood, R. Johne, and D. M. Belnap (2011). The structure of avian polyomavirus reveals variably sized capsids, non-conserved inter-capsomere interactions, and a possible location of the minor capsid protein VP4. Virology 411:142-152.  (PDF)

Tang, J., J. Jose, P. Chipman, W. Zhang, R. J. Kuhn, and T. S. Baker (2011). Molecular links between the E2 envelope glycoprotein and nucleocapsid core in sindbis virus. J. Mol. Biol. 414:442-459.  (PDF)

Tang, J., G. C. Lander, A. Olia, R. Li, S. Casjens, P. Prevelige Jr, G. Cingolani, T. S. Baker, and J. E. Johnson (2011) Peering down the barrel of a bacteriophage portal: The genome packaging and release valve in P22. Structure 19:496-502. (PDF)

Yan, X., K. N. Parent, R. P. Goodman, J. Tang, J. Shou, M. L. Nibert, R. Duncan, and T. S. Baker (2011) Virion structure of baboon reovirus, a fusogenic orthoreovirus that lacks an adhesion fiber. J. Virol. 85:7483-7495. (PDF)

Gurda, B. L., K. N. Parent, H. Bladek, R. S. Sinkovits, M. A. DiMattia, C. Rence, A. Castro, R. McKenna, N. Olson, K. Brown, T. S. Baker, and M. Agbandje-McKenna (2010). Human bocavirus capsid structure: Insights into the structural repertoire of the Parvoviridae. J. Virol. 84:5880-5889.  (PDF)

Parent, K. N., R. Khayat, L. H. Tu, M. M. Suhanovsky, J. R. Cortines, C. M. Teschke, J. E. Johnson, and T. S. Baker (2010). P22 coat protein structures reveal a novel mechanism for capsid Maturation: stability without auxiliary proteins or chemical crosslinks. Structure 18:390-401. (PDF)

Parent, K. N., R. S. Sinkovits, M. M. Suhanovsky, C. M. Teschke, E. H. Egelman, and T. S. Baker (2010). Cryo-reconstructions of P22 polyheads suggest that phage assembly is nucleated by trimeric interactions among coat proteins. Phys. Biol. 7:045004. (PDF)

Seitsonen, J., P. Susi, O. Heikkilä, R. S. Sinkovits, P. Laurinmäki, T. Hyypiä, and S. J. Butcher (2010). Interaction of αVβ3 and αVβ6 integrins with human parechovirus 1. J. Virol. 84:8509-8519. (PDF)

Sinkovits, R. S., and T. S. Baker (2010). A tale of two symmetrons: Rules for construction of icosahedral capsids from trisymmetrons and pentasymmetrons. J. Struct. Bio. 170:109-116. (PDF)

Suhanovsky, M. M., K. N. Parent, S. E. Dunn, T. S. Baker, and C. M. Teschke (2010). Determinants of bacteriophage P22 polyhead formation: the role of coat protein flexibility in conformational switching. Mol. Microbiol. 77:1568-1582. (PDF)

Tang, J., W. F. Ochoa, H. Li, W. M. Havens, M. L. Nibert, S. A. Ghabrial, and T. S. Baker (2010) Structure of Fusarium poae virus 1 shows conserved and variable elements of partitivirus capsids and evolutionary relationships to picobirnavirus. J. Struct. Bio. 172:363-371. (PDF)

Tang, J., J. Pan, W. M. Havens, W. F. Ochoa, T. S. Y. Guu, S. A. Ghabrial, M. L. Nibert, Y. J. Tao, and T. S. Baker (2010). Backbone trace of partitivirus capsid protein from electron cryomicroscopy and homology modeling.  Biophys. J. 99:685-694. (PDF)

Cherrier, M. V., V. A. Kostyuchenko, C. Xiao, V. D. Bowman, A. J. Battisti, X. Yan, P. R. Chipman, T. S. Baker, J. L. Van Etten, and M. G. Rossmann (2009). An icosahedral algal virus has a complex unique vertex decorated by a spike. Proc. Natl. Acad. Sci. USA. doi: 10.1073/pnas.0904716106  (PDF)

Levy, H. C., V. D. Bowman, L. Govindasamy, R. McKenna, K. Nash, K. Warrington, W. Chen, N. Muzyczka, X. Yan, T. S. Baker, and M. Agbandje-McKenna (2009). Heparin binding induces conformational changes in Adeno-associated virus serotype 2. J. Struct Bio. 165:146-156.  (PDF)

Pan, J., L. Dong, L. Lin, W. F. Ochoa, R. S. Sinkovits, W. M. Havens, M. L. Nibert, T. S. Baker, S. A. Ghabrial, and Y. J. Tao (2009). Atomic structure reveals the unique capsid organization of a dsRNA virus. Proc. Natl. Acad. Sci. USA. 106:4225-4230. (PDF)

Tang, J., K. K. Lee, B. Bothner, T. S. Baker, M. Yeager, and J. E. Johnson (2009). Dynamics and stability in maturation of a T = 4 virus. J. Mol. Biol. 392:803-812. (PDF)

Yan, X., Z. Yu, P. Zhang, A. J. Battisti, H. A. Holdaway, P. R. Chipman, C. Bajaj, M. Bergoin, M. G. Rossmann, and T. S. Baker (2009). The capsid proteins of a large, icosahedral dsDNA virus. J. Mol. Biol. 385:1287-1299. (PDF)

Ochoa, W. F., W. M. Havens, R. S. Sinkovits, M. L. Nibert, S. A. Ghabrial, and T. S. Baker (2008). Partitivirus structure reveals a 120-subunit, helix-rich capsid with distinctive surface arches formed by quasisymmetric coat-protein dimers. Structure 16:776-786. (PDF)

Tang, J., W. F. Ochoa, R. S. Sinkovits, B. T. Poulos, S. A. Ghabrial, D. V. Lightner, T. S. Baker, and M. L. Nibert (2008) Infectious myonecrosis virus has a totivirus-like, 120-subunit capsid, but with fiber complexes at the fivefold axes. Proc. Natl. Acad. Sci. USA. 105:17526–17531. (PDF)

Tang, J., N. Olson, P. J. Jardine, S. Grimes, D. L. Anderson, and T. S. Baker (2008). DNA poised for release in bacteriophage Φ29. Structure 16:935-943. (PDF)

Yan X., K. A. Dryden, J. Tang, and T. S. Baker (2007) Ab initio random model method facilitates 3D reconstruction of icosahedral particles. J. Struct. Bio. 157:211-225. (PDF)

Yan X., R. S. Sinkovits, and T. S. Baker (2007) AUTO3DEM - an automated and high throughput program for image reconstruction of icosahedral particles. J. Struct. Bio. 157:73-82. (PDF)

Ji, Y., D. C. Marinescu, W. Zhang, X. Zhang, X. Yan, and T. S. Baker (2006) A model-based parallel origin and orientation refinement algorithm for cryoTEM and its application to the study of virus structures. J. Struct. Bio. 154:1-19. (PDF)

Mukhopadhyay, S., W. Zhang, S. Gabler, P. R. Chipman, E. G. Strauss, J. H. Strauss, T. S. Baker, R. J. Kuhn and M. G. Rossmann (2006) Mapping the structure and function of the E1 and E2 glycoproteins in alphaviruses. Structure 14:63-73.(PDF)

Sherman, M. B., R. H. Guenther, F. Tama, T. L. Sit, C. L. Brooks, A. M. Mikhailov, E. V. Orlova, T. S. Baker, and S. A. Lommel (2006). Removal of divalent cations induces structural transitions > in Red Clover Necrotic Mosaic Virus, revealing a potential mechanism for RNA release. J. Virol. 80:10395-10406. (PDF)

Padron, E., V. Bowman, N. Kaludov, L. Govindasamy, H. Levy, P. Nick, R. McKenna, N. Muzyczka, J. A. Chiorini, T. S. Baker, and M. Agbandje-McKenna (2005) Structure of adeno-associated virus type 4. J. Virol. 79:5047-5058. (PDF)

Yan, X., P. R. Chipman, T. Castberg, G. Bratbak, and T. S. Baker (2005) The marine algal virus PpV01 has an icosahedral capsid with T=219 quasisymmetry. J. Virol. 79:9236-9243. (PDF)

Zhang, W., M. Heil, R. J. Kuhn, and T. S. Baker (2005) Heparin binding sites on Ross River virus revealed by electron cryo-microscopy. Virology 332:511-518. (PDF)

Zhang, X., Y. Ji, L. Zhang, S. C. Harrison, D. C. Marinescu, M. L. Nibert, and T. S. Baker (2005) Features of reovirus outer capsid protein μ1 revealed by electron cryomicroscopy and image reconstruction of the virion at 7.0Å resolution. Structure 13:1545-1557. (PDF)

Zhang, X., J. Tang, S. B. Walker, D. O'Hara, M. L. Nibert, R. Duncan, and T. S. Baker (2005) Structure of avian orthoreovirus virion by electron cryomicroscopy and image reconstruction. Virology 343:25-35. (PDF)

Kong, Y., X. Zhang, T. S. Baker, and J. Ma (2004) A structural-informatics approach for tracing β-sheets: building pseudo-Cα-traces for β-strands in intermediate-resolution density maps. J. Mol. Biol. 339:117-130. (PDF)

Odegard, A. L., K. Chandran, X. Zhang, J. S. L. Parker, T. S. Baker, and M. L. Nibert (2004) Putative autocleavage of outer-capsid protein μ1, allowing release of myristoylated peptide μ1N during particle uncoating, is critical for cell entry by reovirus. J. Virol. 78:8732-8745. (PDF)

Singh, V., D. C. Marinescu, and T. S. Baker (2004) Image segmentation for automatic particle identification in electron micrographs based on hidden Markov random field models and expectation maximization. J. Struct. Biol. 145:123-141. (PDF)

Walters, R. W., M. Agbandje-McKenna, V. D. Bowman, T. O. Moninger, N. H. Olson, M. Seiler, J. A. Chiorini, T. S. Baker, and J. Zabner (2004) Structure of adeno-associated virus serotype 5. J. Virol. 78:3361-3371. (PDF)

Zhang, Y., W. Zhang, S. Ogata, D. Clements, J. H. Strauss, T. S. Baker, R. J. Kuhn, and M. G. Rossmann (2004) Conformational changes of the flavivirus E glycoprotein. Structure 12:1607- 1618. (PDF)

Bernal, R. A., S. Hafenstein, N. H. Olson, V. D. Bowman, P. R. Chipman, T. S. Baker, B. A. Fane, and M. G. Rossmann (2003) Structural studies of bacteriophage α3 assembly. J. Mol. Biol. 325:11-24. (PDF)

Willits, D. A., X. Zhao, N. Olson, T. S. Baker, A. Zlotnick, J. E. Johnson, T. Douglas, and M. J. Young (2003) Analysis of the cowpea chlorotic mottle bromovirus β-hexamer structure on virion assembly. Virology 306:280-288. (PDF)

Zhang, W., P. R. Chipman, J. Corver, P. R. Johnson, Y. Zhang, S. Mukhopadhyay, T. S. Baker, J. H. Strauss, M. G. Rossmann, and R. J. Kuhn (2003) Visualization of membrane protein domains by cryo-electron microscopy of dengue virus. Nat. Struct. Biol. 10:907-912. (PDF)

Zhang, X., S. B. Walker, P. R. Chipman, M. L. Nibert, and T. S. Baker (2003) Reovirus polymerase λ3 localized by electron cryomicroscopy of virions at 7.6-Å resolution. Nat. Struct. Biol. 10:1011- 1018. (PDF)

Zhang, Y., J. Corver, P. R. Chipman, W. Zhang, S. V. Pletnev, D. Sedlak, T. S. Baker, J. H. Strauss, R. J. Kuhn, and M. G. Rossmann (2003) Structures of immature flavivirus particles. EMBO J. 22:2604-2613. (PDF)

Bowman, V., E. Chase, A. Franz, P. R. Chipman, K. Perry, T. S. Baker, and T. J. Smith (2002) An antibody to the putative aphid recognition site on cucumber mosaic virus recognizes pentons but not hexons. J. Virol. 76:12250-12258. (PDF)

Guasch, A., J. Pous, B. Ibarra, F. X. Gomis-Ruth, J. M. Valpuesta, N. Sousa, J. L. Carrascosa, M. Coll, A. A. Simpson, Y. Tao, P. G. Leiman, M. O. Badasso, Y. He, P. J. Jardine, N. H. Olson, M. C. Morais, S. Grimes, D. L. Anderson, T. S. Baker, and M. G. Rossmann (2002) Note to the paper by Guasch et al. (2002) Detailed architecture of a DNA translocating machine: The high-resolution structure of the bacteriophage φ29 connector particle. J. Mol. Biol. 321:379-380. (PDF)

He, Y., F. Lin, P. R. Chipman, C. M. Bator, T. S. Baker, M. Shoham, R. J. Kuhn, M. E. Medof, and M. G. Rossmann (2002) Structure of decay-accelerating factor bound to Echovirus 7: A virus-receptor complex. Proc. Natl. Acad. Sci. USA. 99:10325-10329. (PDF)

Kim, J., X. Zhang, V. E. Centonze, S. Noble, T. S. Baker, and M. L. Nibert (2002) The hydrophilic amino-terminal domain of reovirus core-shell protein λ1 is dispensable for core-shell assembly. J. Virol. 76:12211-12222. (PDF)

Kuhn, R. J., W. Zhang, M. G. Rossmann, S. V. Pletnev, J. Corver, E. Lenches, C. T. Jones, S. Mukhopadhyay, P. R. Chipman, E. G. Strauss, T. S. Baker, and J. H. Strauss (2002) Structure of dengue virus: Implications for flavivirus organization, maturation, and fusion. Cell 108:717-725. (PDF)

Liemann, S., K. Chandran, T. S. Baker, M. L. Nibert, and S. C. Harrison (2002) Structure of the reovirus membrane-penetration protein, μ1, in a complex with its protector protein, σ3. Cell 108:283-295. (PDF)

Luongo, C. L., X. Zhang, S. B. Walker, Y. Chen, T. J. Broering, D. L. Farsetta, V. D. Bowman, T. S. Baker, and M. L. Nibert (2002) Loss of activities for mRNA synthesis accompanies loss of λ2 spikes from reovirus cores: An effect of λ2 on λ1 shell structure. Virology 296:24-38. (PDF)

Nandhagopal, N., A. Simpson, J. R. Gurnon, X. Yan, T. S. Baker, M. V. Graves, J. L. Van Etten, M. G. Rossmann (2002) The structure and evolution of the major capsid protein of a large, lipid-containing, DNA virus. Proc. Natl. Acad. Sci. USA. 99:14758-14763. (PDF)

Zhang, W., B. R. Fisher, N. H. Olson, J. H. Strauss, R. J. Kuhn, and T. S. Baker (2002) Aura virus structure suggests that the T=4 organization is a fundamental property of the viral structural proteins. J. Virol. 76:7239-7246. (PDF)

Zhang, W., S. Mukhopadhyay, S. V. Pletnev, T. S. Baker, R. J. Kuhn, and M. G. Rossmann (2002) Placement of the structural proteins in Sindbis virus. J. Virol. 76:11645-11658. (PDF)

Chandran, K., X. Zhang, N. H. Olson, S. B. Walker, J. D. Chappell, T. S. Dermody, T. S. Baker, and M. L. Nibert (2001) Complete in vitro assembly of the reovirus outer capsid produces highly infectious particles suitable for genetic studies of the cell attachment protein. J. Virol. 75:5335-5342. (PDF)

He, Y., P. R. Chipman, J. Howitt, V, C. M. Bator, M. A. Whitt, T. S. Baker, R. J. Kuhn, C. W. Anderson, P. Freimuth, and M. G. Rossmann (2001) Interaction of coxsackievirus B3 with full- length coxsackievirus and adenovirus receptor. Nat. Struct. Biol. 8:874-878. (PDF)

Morais, M. C., Y. Tao, N. H. Olson, S. Grimes, P. J. Jardine, D. L. Anderson, T. S. Baker, and M. G. Rossmann (2001) Cryo-EM image reconstruction of symmetry mismatches in bacteriophage φ29. J. Struct. Biol. 135:38-46. (PDF)

Olson, N. H., T. S. Baker, M. Gingery, and F. A. Eiserling (2001) The structure of isometric capsids of bacteriophage T4. Virology 279:385-391. (PDF)

Pletnev, S. V., W. Zhang, S. Mukhopadhyay, B. R. Fisher, R. Hernandez, D. T. Brown, T. S. Baker, M. G. Rossmann and R. J. Kuhn (2001) Locations of carbohydrate sites on alphavirus glycoproteins show that E1 forms an icosahedral scaffold. Cell 105:127-136. (PDF)

Xiao, C., C. M. Bator, V. D. Bowman, E. Rieder, Y. He, B. Hebert, J. Bella, T. S. Baker, E. Wimmer, R. J. Kuhn, and M. G. Rossmann (2001) Interaction of coxsackievirus A21 with its cellular receptor, ICAM-1. J. Virol. 75:2444-2451. (PDF)

Zhang, W., N. H. Olson, T. S. Baker, L. Faulkner, M. Agbandje-McKenna, M. I. Boulton, J. W. Davies, and R. McKenna (2001) Structure of the maize streak virus geminate particle. Virology 279:471-477. (PDF)

He, Y., V. D. Bowman, S. Mueller, C. M. Bator, J. Bella, X. Peng, T. S. Baker, E. Wimmer, R. J. Kuhn, and M. G. Rossmann (2000) Interaction of the poliovirus receptor with poliovirus. Proc. Natl. Acad. Sci. USA. 97:79-84. (PDF)

Simpson, A. A., Y. Tao, P. G. Leiman, Y. He, M. O. Basso, Y. He, P. J. Jardine, N. H. Olson, M. C. Morais, S. Grimes, D. L. Anderson, T. S. Baker, and M. G. Rossmann (2000) Structure of the bacteriophage φ29 DNA packaging motor. Nature 408:745-750. (PDF)

Yan, X., N. H. Olson, J. L. van Etten, M. Bergoin, M. G. Rossmann, and T. S. Baker (2000) Structure and assembly of large, lipid-containing, dsDNA viruses. Nat. Struct. Biol. 7:101-103. (PDF)

Belnap, D. M., A. Kumar, J. T. Folk, T. J. Smith, and T. S. Baker (1999) Low-resolution density maps from atomic models: How stepping 'back' can be a step 'forward'. J. Struct. Biol. 125:166-175. (PDF)

Chandran, K., S. B. Walker, Y. Chen, C. Contreras, S. Noble, L. A. Schiff, T. S. Baker, and M. L. Nibert (1999) In vitro recoating of reovirus cores with baculovirus-expressed μ1 and σ3 proteins. J. Virol. 73:3941-3950. (PDF)

Jane-Valbuena, J., M. L. Nibert, S. M. Spencer, S. B. Walker, T. S. Baker, Y. Chen, V. E. Centonze, and L. A. Schiff (1999) Reovirus virion-like particles obtained by recoating ISVPs< with baculovirus-expressed σ3 protein: An approach for analyzing σ3 functions during virus entry. J. Virol. 73:2963-2973. (PDF)

Kolatkar, P. R., J. Bella, N. H. Olson, C. M. Bator, T. S. Baker, and M. G. Rossmann (1999) Structural studies of two rhinovirus serotypes complexed with fragments of their cellular receptor. EMBO J. 18:6249-6259. (PDF)

Krol, M., N. H. Olson, J. Tate, J. E. Johnson, T. S. Baker, and P. Ahlquist (1999) RNA-controlled polymorphism in the in vivo assembly of 180-subunit and 120-subunit virions from a single capsid subunit. Proc. Natl. Acad. Sci. USA. 96:13650-13655. (PDF)

McKenna, R., N. H. Olson, P. R. Chipman, T. S. Baker, T. F. Booth, J. Christensen, B. Aasted, J. M. Fox, M. E. Bloom, J. B. Wolfinbarger, and M. Agbandje-McKenna (1999) The three dimensional structure of Aleutian mink disease parvovirus: Implications for disease pathogenicity. J. Virol. 73:6882-6891. (PDF)

Sosinsky, G. E., T. S. Baker, G. Hand, and M. H. Ellisman (1999) The electron microscopy outreach program: A web based resource for research and education. J. Struct. Biol. 125:246-252. (PDF)

Che, Z., N. H. Olson, A. G. Mosser, D. Leippe, R. R. Rueckert, T. S. Baker, and T. J. Smith (1998) Antibody-mediated neutralization of human rhinovirus 14 explored by means of cryo-electron microscopy and X-ray crystallography of virus-Fab complexes. J. Virol. 72:4610-4622. (PDF)

Chipman, P. R. , M. Agbandje-McKenna, J. Renaudin, T. S. Baker, and R. McKenna (1998) Structural analysis of the spiroplasma virus, SpV4: Implications for evolutionary variation to obtain host diversity among the Microviridae. Structure 6:135-145. (PDF)

Dryden, K. A., D. L. Farsetta, G. Wang, J. M. Keegan, B. N. Fields, T. S. Baker, and M. L. Nibert (1998) Internal structures containing transcriptase-related proteins in top component particles of mammalian orthoreovirus. Virology 245:33-46. (PDF)

Fox, J. M., G. Wang, J. A. Speir, N. H. Olson, J. E. Johnson, T. S. Baker, and M. Y. Young (1998) Comparison of the native CCMV virion with in vitro assembled CCMV virions by cryo-electron microscopy and image reconstruction. Virology 244:212-218. (PDF)

Simpson, A. A., P. R. Chipman, T. S. Baker, P. Tijssen, and M. G. Rossmann (1998) The structure of an insect parvovirus (Densovirus) at 3.7Å resolution. Structure 6:1355-1367. (PDF)

Tao, Y., N. H. Olson, W. Xu, D. L. Anderson, M. G. Rossmann, and T. S. Baker (1998) Assembly of a tailed bacterial virus and its genome release studied in three dimensions. Cell 95:431-437. (PDF)

Belnap, D. M., N. H. Olson, and T. S. Baker (1997) A method for establishing the hand of biological macromolecules. J. Struct. Biol. 120:44-51. (PDF)

Boier Martin, I. M., D. C. Marinescu, R. E. Lynch, and T. S. Baker (1997) Identification of spherical virus particles in digitized images of entire electron micrographs. J. Struct. Biol. 120:146-157. (PDF)

Kumar, A., V. Reddy, V. Yusibov, P. R. Chipman, Y. Hatta, I. Fita, K. Fukyama, M. Rossmann, S. Loesch-Fries, T. S. Baker and J. E. Johnson (1997) The structure of alfalfa mosaic virus assembled as a T=1 icosahedral particle at 4.0-Å resolution. J. Virol. 71:7911-7916. (PDF)

Luongo, C. L., K. A. Dryden, D. L. Farsetta, R. L. Margraf, T. F. Severson, N. H. Olson, B. N. Fields, T. S. Baker, and M. L. Nibert (1997) Localization of a C-terminal region of λ2 protein in reovirus cores. J. Virol. 71:8035-8040. (PDF)

Spencer, S. M., J.-Y. Sgro, K. A. Dryden, T. S. Baker, and M. L. Nibert (1997) IRIS explorer software for radial-depth cueing reovirus particles and other macromolecular structures determined by cryoelectron microscopy and image reconstruction. J. Struct. Biol. 120:11-21. (PDF)

Stoops, J. K., R. H. Cheng, M. A. Yazdi, C.-Y. Maeng, J. P. Schroeter, U. Klueppelberg, S. J. Kolodziej, T. S. Baker, and L. J. Reed (1997) On the unique structural organization of the Saccharomyces cerevisiae pyruvate dehydrogenase complex. J. Biol. Chem. 272:5757-5764. (PDF)

Wikoff, W. R., C. J. Tsai, G. Wang, T. S. Baker and J. E. Johnson (1997) The structure of cucumber mosaic virus: cryo-electron microscopy, X-ray crystallography and sequence analysis. Virology 232:91-97. (PDF)

Baker, T. S. and R. H. Cheng (1996) A model-based approach for determining orientations of biological macromolecules imaged by cryo-electron microscopy. J. Struct. Biol. 116:120-130. (PDF)

Belnap, D. M., N. H. Olson, N. M. Cladel, W. W. Newcomb, J. C. Brown, J. W. Kreider, N. D. Christensen, and T. S. Baker (1996) Conserved features in papilloma and polyoma virus capsids. J. Mol. Biol. 259:249-263. (PDF)

Chipman, P. R., M. Agbandje-McKenna, S. Kajigaya, K. E. Brown, N. S. Young, T. S. Baker, and M. G. Rossmann (1996) Cryo-electron microscopy studies of empty capsids of human parvovirus B19, complexed with its cellular receptor. Proc. Natl. Acad. Sci. USA. 93:7502-7506. (PDF)

Fuller, S. D., S. J. Butcher, R. H. Cheng, and T. S. Baker (1996) Three-dimensional reconstruction of icosahedral particles - The uncommon line. J. Struct. Biol. 116:48-55. (PDF)

Smith, T. J., E. S. Chase, T. J. Schmidt, N. H. Olson, and T. S. Baker (1996) Neutralizing antibody to human rhinovirus 14 penetrates the receptor-binding canyon. Nature 383:350-354. (PDF)

Cheng, R. H., R. J. Kuhn, N. H. Olson, M. G. Rossmann, H.-K. Choi, T. J. Smith, and T. S. Baker (1995) Nucleocapsid and glycoprotein organization in an enveloped virus. Cell 80:621-630. (PDF)

Ilag, L. L., N. H. Olson, T. Dokland, C. L. Music, R. H. Cheng, Z. Bowen, R. McKenna, M. G. Rossmann, T. S. Baker, and N. L. Incardona (1995) DNA packaging intermediates of bacteriophage φX174. Structure 3:353-363. (PDF)

Smith, T. J., R. H. Cheng, N. H. Olson, P. Peterson, E. Chase, R. J. Kuhn, and T. S. Baker (1995) Putative receptor binding sites on enveloped viruses as visualized by cryo-electron microscopy. Proc. Natl. Acad. Sci. USA. 92:10648-10652. (PDF)

Speir, J. A., S. Munshi, G. Wang, T. S. Baker, and J. E. Johnson (1995) Structures of the native and swollen forms of cowpea chlorotic mottle virus determined by X-ray crystallography and cryo-electron microscopy. Structure 3:63-78. (PDF)

Zhao, X., J. Fox, N. H. Olson, T. S. Baker, and M. J. Young (1995) In vitro assembly of cowpea chlorotic mottle virus from coat protein expressed in E. coli and in vitro transcribed viral cDNA. Virology 207:486-494. (PDF)

Cheng, R. H., J. R. Caston, G. J. Wang, F. Gu, T. J. Smith, T. S. Baker, R. F. Bozarth, B. L. Trus, N. Cheng, R. B. Wickner, and A. C. Steven (1994) Fungal virus capsids: cytoplasmic compartments for the replication of double-stranded RNA formed as icosahedral shells of asymmetric Gag dimers. J. Mol. Biol. 244:255-258. (PDF)

Cheng, R. H., V. Reddy, N. H. Olson, A. Fisher, T. S. Baker, and J. E. Johnson (1994) Functional implications of quasi-equivalence in a T=3 icosahedral animal virus established by cryo-electron microscopy and X-ray crystallography. Structure 2:271-282. (PDF)

Cramer, W. A., S. E. Martinez, D. Huang, G. -S. Tae, R. M. Everly, B. Heymann, R. H. Cheng, T. S. Baker, and J. L. Smith (1994) Structural aspects of the cytochrome b6f complex; Structure of the lumen-side domain of cytochrome f. J. Bioenerg. Biomem., special issue, in W. A. Cramer, ed., Structure-function of proteins involved in photosynthetic energy
transduction, 26:31-47.

Hagensee, M., N. H. Olson, T. S. Baker, and D. Galloway (1994) Three-dimensional structure of vaccinia virus-produced HPV-1 capsids. J. Virol. 68:4503-4505. (PDF)

Huang, D., R. M. Everly, R. H. Cheng, J. B. Heymann, H. Schägger, V. Sled, T. Ohnishi, T. S. Baker, and W. A. Cramer (1994) Characterization of the chloroplast cytochrome b6f complex as a structural and functional dimer. Biochem. 33:4401-4409. (PDF)

Liu, H., T. J. Smith, W. M. Lee, A. G. Mosser, R. R. Rueckert, N. H. Olson, R. H. Cheng, and T. S. Baker (1994) Structure determination of an Fab fragment that neutralizes human rhinovirus 14 and analysis of the Fab-virus complex. J. Mol. Biol. 240:127-137. (PDF)

Porta, C., G. Wang, R. H. Cheng, Z. Chen, T. S. Baker, and J. E. Johnson (1994) Direct imaging of interactions between an icosahedral virus and conjugate Fab fragments by cryo-electron microscopy and X-ray crystallography. Virology 204:777-788. (PDF)

Wikoff, W. R., G. Wang, C. R. Parrish, R. H. Cheng, M. L. Strassheim, T. S. Baker, and M. G. Rossmann (1994) The structure of a neutralized virus: Canine parvovirus complexed with neutralizing antibody fragment. Structure 2:595-607. (PDF)

Yeager, M., J. A. Berriman, T. S. Baker, and A. R. Bellamy (1994) Three-dimensional structure of the rotavirus haemagglutinin VP4 by cryo-electron microscopy and difference map analysis. EMBO Journal 13:1011-1018. (PDF)

Belnap, D. M., W. D. Grochulski, N. H. Olson, and T. S. Baker (1993) Use of radial density plots to calibrate image magnification for frozen-hydrated specimens. Ultramicroscopy 48:347-358. (PDF)

Dryden, K. A., G.-J. Wang, M. A. Yeager, M. Nibert, D. Furlong, K. Coombs, B. Fields, and T. S. Baker (1993) Early steps in reovirus infection are associated with dramatic changes in supramolecular structure and protein conformation: Analysis of virions and subviral particles by cryoelectron microscopy and three-dimensional image reconstruction. J. Cell Biol. 122:1023-1041. (PDF)

Olson, N. H., P. R. Kolatkar, M. A. Oliveria, R. H. Cheng, J. M. Greve, A. McClelland, T. S. Baker, and M. G. Rossmann (1993) Structure of a human rhinovirus complexed with its receptor molecule. Proc. Natl. Acad. Sci. USA. 90:507-511. (PDF)

Smith, T. J., N. H. Olson, R. H. Cheng, H. Liu, E. S. Chase, W. M. Lee, D. M. Leippe, A. G. Mosser, R. R. Rueckert, and T. S. Baker (1993a) Structure of human rhinovirus complexed with Fab fragments from a neutralizing antibody. J. Virol. 67:1148-1158. (PDF)

Smith, T. J., N. H. Olson, R. H. Cheng, E. S. Chase, and T. S. Baker (1993b) Structure of a human rhinovirus-bivalently bound antibody complex: Implications for virus neutralization and antibody flexibility. Proc. Natl. Acad. Sci. USA. 90:7015-7018. (PDF)

Speir, J. A., S. Munshi, T. S. Baker, and J. E. Johnson (1993) Preliminary X-ray data analysis of crystalline cowpea chlorotic mottle virus. Virology 193:234-241. (PDF)

Cheng, R. H., N. H. Olson, and T. S. Baker (1992) Cauliflower mosaic virus, a 420 subunit (T=7), multilayer structure. Virology 186:655-668. (PDF)

McKenna, R, D. Xi, P. Willingmann, L. L. Ilag, S. Krishnaswamy, M. G. Rossmann, N. H. Olson, T. S. Baker, and N. L. Incardona (1992) The atomic structure of the single-stranded DNA bacteriophage ΦX174 and its functional implications. Nature 355:137-143. (PDF)

Olson, N. H., T. S. Baker, P. Willingmann, and N. L. Incardona (1992) The three-dimensional structure of frozen-hydrated bacteriophage ΦX174. J. Struct. Biol. 108:168-175. (PDF)

Stoops, J. K., T. S. Baker, J. P. Schroeter, S. J. Kolodziej, X.-D. Niu, and L. J. Reed (1992) Three-dimensional structures of the truncated core of the Saccharomyces cerevisiae pyruvate dehydrogenase complex determined from negative-stain and cryo-electron microscopy images. J. Biol. Chem. 267:24769-24775. (PDF)

Wang, G., C. Porta, Z. Chen, T. S. Baker, and J. E. Johnson (1992) Identification of a Fab interaction site (footprint) on an icosahedral virus by cryo-electron microscopy and X-ray crystallography. Nature 355:275-278. (PDF)

Baker, T. S., W. W. Newcomb, N. H. Olson, L. M. Cowsert, C. Olson, and J. C. Brown (1991) Structures of bovine and human papilloma viruses: Analysis by cryoelectron microscopy and three-dimensional image reconstruction. Biophys. J. 60:1445-1456. (PDF)

Booy, F. P., W. W. Newcomb, B. L. Trus, J. C. Brown, T. S. Baker, and A. C. Steven (1991) Liquid-crystalline, phage-like packing of encapsidated DNA in herpes simplex virus. Cell 64:1007-1015. (PDF)

Guo, P., S. Erickson, W. Xu, N. H. Olson, T. S. Baker, and D. Anderson (1991) Regulation of the phage φ29 prohead shape and size by the portal vertex. Virology 183:366-373. (PDF)

Stoops, J. K., J. P. Schroeter, J.-P. Bretaudiere, N. H. Olson, T. S. Baker, and D. K. Strickland (1991) The structure of human α2-macroglobulin: Concordance between projected views obtained by negative stain and cryoelectron microscopy. J. Struct. Biol. 106:172-178. (PDF)

Winkelmann, D. A., T. S. Baker, and I. Rayment (1991) Three-dimensional structure of myosin subfragment 1 from electron microscopy of sectioned crystals. J. Cell Biol. 114:701-713. (PDF)

Baker, T. S., W. W. Newcomb, F. P. Booy, J. C. Brown, and A. C. Steven (1990) Three- dimensional structures of maturable and abortive capsids of equine herpes virus type-1 from cryo-electron microscopy. J. Virol. 64:563-573. (PDF)

Olson, N. H., T. S. Baker, J. E. Johnson, and D. A. Hendry (1990) The three-dimensional structure of frozen-hydrated Nudaurelia capensis β, a T=4 insect virus. J. Struct. Biol. 105:111-122.

Sosinsky, G. E., T. S. Baker, D. L. D. Caspar, and D. A. Goodenough (1990) Correlation analysis of gap junction lattice images. Biophys. J. 58:1213-1226. (PDF)

Yeager, M., K. A. Dryden, N. H. Olson, H. B. Greenburg, and T. S. Baker (1990) Three-dimensional structure of rotavirus by cryo-electron microscopy and image reconstruction. J. Cell Biol. 110:2133-2144. (PDF)

Baker, T. S., J. Drak, and M. Bina (1989) The capsid of small papova viruses contains 72 pentameric capsomeres: direct evidence from cryo-electron microscopy of simian virus 40. Biophys. J. 55:243-253. (PDF)

Olson, N. H., and T. S. Baker (1989) Magnification calibration and the determination of spherical virus diameters using cryo-microscopy. Ultramicroscopy 30:281-297. (PDF)

Baker, T. S., J. Drak, and M. Bina (1988) Reconstruction of the three-dimensional structure of simian virus 40 and visualization of the chromatin core. Proc. Natl. Acad. Sci. USA 85:422-426. (PDF)

Baker, T. S., G. E. Sosinsky, D. L. D. Caspar, C. Gall, and D. A. Goodenough (1985) Gap junction structures VII. Connexon morphology and packing imaged by negative stains. J. Mol. Biol. 184:81-98. (PDF)

Makowski, L., D. L. D. Caspar, W. C. Phillips, T. S. Baker, and D. A. Goodenough (1984) Gap junction structures VI. Variation and conservation in connexon conformation and packing. Biophys. J. 45:208-218. (PDF)

Baker, T. S., and D. L. D. Caspar (1984) Computer image modeling of pentamer packing in polyoma virus "hexamer" tubes. Ultramicroscopy 13:137-152. (PDF)

Baker, T. S., D. L. D. Caspar, C. Hollingshead, and D. A. Goodenough (1983) Gap junction structures IV. Asymmetric features revealed by low-irradiation electron microscopy. J. Cell. Biol. 96:204-216. (PDF)

Baker, T. S., D. L. D. Caspar, and W. T. Murakami (1983) Polyoma virus "hexamer" tubes consist of paired pentamers. Nature 303:446-448. (PDF)

Rayment, I., T. S. Baker, and D. L. D. Caspar (1983) A description of the techniques and application of molecular replacement used to determine the structure of polyoma virus capsids at 22.5 Å resolution. Acta Cryst. B 39:505-516.

Rayment, I., T. S. Baker, D. L. D. Caspar, and W. R. Murakami (1982) Polyoma virus capsid crystal structure at 22.5 Å resolution. Nature 295:110-115. (PDF)

Amos, L. A., and T. S. Baker (1979) The three-dimensional structure of tubulin protofilaments. Nature 279:607-612. (PDF)

Amos, L. A., and T. S. Baker (1979) Three-dimensional image of tubulin in zinc-induced sheets, reconstructed from electron micrographs. Intl. J. Biol. Macromol. 1:146-156. (PDF)

Frank, J., W. Goldfarb, D. Eisenberg and T. S. Baker (1979) Addendum to 'Reconstruction of glutamine synthetase using computer averaging'. Ultramicroscopy 4:247. (PDF)

Baker, T. S., and L. A. Amos (1978) Structure of the tubulin heterodimer in zinc-induced sheets. J. Mol. Biol. 123:89-106. (PDF)

Frank, J., W. Goldfarb, D. Eisenberg, and T. S. Baker (1978) Reconstruction of glutamine synthetase using computer averaging. Ultramicroscopy 3:283-290. (PDF)

Baker, T. S., D. Eisenberg, and F. A. Eiserling (1977) Ribulose bisphosphate carboxylase: a two-layered, square-shaped molecule of symmetry 422. Science 196:293-295. (PDF)

Baker, T. S., S. W. Suh, and D. Eisenberg (1977) Structure of ribulose-1,5-bisphosphate carboxylase-oxygenase: Form III crystals. Proc. Natl. Acad. Sci. USA 74:1037-1041. (PDF)

Baker, T. S., D. Eisenberg, F. A. Eiserling, and L. Weissman (1975) The structure of Form I crystals of D-ribulose-1,5-diphosphate carboxylase. J. Mol. Biol. 91:391-399. (PDF)

Ghabrial, S. A., S. E. Dunn, H. Li, J. Xie, and T. S. Baker (2013) Chapter Eleven - Viruses of Helminthosporium (Cochlioblus) victoriae, pp. 289-325. In A. G. Said, Ed., Advances in Virus Research. Vol. 86. Academic Press. (PDF)

Nibert, M. L., J. Tang, J. Xie, A. M. Collier, S. A. Ghabrial, T. S. Baker, and Y. J. Tao (2013) Chapter Three - 3D Structures of Fungal Partitiviruses, pp. 59-85. In A. G. Said, Ed., Advances in Virus Research. Vol. 86. Academic Press.

Baker, T. S., and R. Henderson (2012). Electron cryomicroscopy of biological macromolecules,. In E. Arnold, D. M. Himmel and M. G. Rossmann, Eds., "International tables for crystallography" Vol. F, ch 19.6, pp. 593-614: Crystallography of biological macromolecules. (2nd Ed.) IUCr Journals, (PDF)

Dunn, S. E., H. Li, M. L. Nibert, S. A. Ghabrial, and T. S. Baker (2011) Electron cryo-microscopy studies of Helminthosporium victoriae virus 190S.  Proc. Microsc. Microanal. 2011 (Nashville), 17(suppl 2):134-135. (PDF)

Ghabrial, S. A., M. L. Nibert, E. Maiss, T. Lesker, T. S. Baker, and Y. J. Tao (2011) Partitviridae, pp. 523-543. In A. M. Q. King, M. J. Adams, E. B. Carstens and E. J. Lefkowitz, Eds., "Virus Taxonomy, 9th Report of the International Committee on Taxonomy of Viruses". Elsevier Academic Press, San Diego. (PDF)

Parent, K. N., R. S. Sinkovits, S. R. Casjens, and T. S. Baker. Preliminary studies of bacteriophage Sf6 virions: Icosahedral, asymmetric, and tomographic reconstructions. Proc. Microsc. Microanal. 2011 (Nashville),  17(suppl 2):98-99. (PDF)

Sinkovits, R. S., and T. S. Baker (2011) Structure Determination of Icosahedral Viruses Imaged by Cryo-electron Microscopy, pp. 81-99. Chap. 5 In M. Agbandje-McKenna and R. McKenna, Eds., "Structural Virology". The Royal Society of Chemistry, Cambridge. (PDF)

Tang, J., G. Lander, A. Olia, R. Li, S. Casjens, P. Prevelige Jr., G. Cingolani, J. E. Johnson, and T. S. Baker (2011) P22 bacteriophage portal: the conduit for DNA packaging and release. Proc. Microsc. Microanal. 2011 (Nashville), 17(suppl 2):100-101. (PDF)

Tang, J., R. S. Sinkovits, and T. S. Baker (2010) Three-Dimensional Asymmetric Reconstruction of Tailed Bacteriophage, Vol. 482, pp. 185-210. In J. J. Grant, Ed. "Methods in Enzymology". Academic Press. (PDF)

Baker, T. S. (2009). Electron Crystallography of Biological Macromolecules, In R. M. Glaeser, K. Downing, D. DeRosier, W. Chiu, J. Frank. Oxford University Press; 2007, 476 pages. ISBN 0195088719 hardcover. Microsc. Microanal. 15: 174-176. (PDF)

Ghabrial, S. A., W. F. Ochoa, T. S. Baker, and M. L. Nibert (2008). Partitiviruses: General features. 3rd ed. In "Encyclopedia of Virology" (Mahy, B. W. J., and M. H. V. Van Regenmortel, Eds.), Vol. 4, pp. 68-75. 5 vols. Elsevier, Oxford. (PDF)

Baker, T. S., and R. Henderson (2006). Electron cryomicroscopy. In "International Tables for Crystallography", Vol. F, ch. 19, pp. 451-463. (PDF)

Baker, T. S., X. Zhang, J. Tang, Y. Ji, L. Zhang, S. C. Harrison, D. C. Marinescu, and M. L. Nibert (2005) Dissecting the structure and function of the orthoreovirus μ1 ('Penetrin') protein at 7.0-Å and higher resolution.  Proc. Microsc. Microanal. 2005 (Hawaii), 11:1070-1071. (PDF)

Yan, X., V. D. Bowman, N. H. Olson, J. L. Van Etten, M.G. Rossmann, and T. S. Baker (2005) The structure of a T=169d algal virus, PBCV-1, at 15 Å Resolution.  Proc. Microsc. Microanal. 2005 (Hawaii), 11:1056-1057. (PDF)

Yan, X., P. R. Chipman, T. Batistti, M. Bergoin, M.G. Rossmann, and T. S. Baker (2005) The structure of the T=147 iridovirus, CIV, at 13 Å resolution.  Proc. Microsc. Microanal. 2005 (Hawaii), 11:134-135. (PDF)

Henderson, R. and T. S. Baker (2003) Electron cryomicroscopy of biological macromolecules. In D. Abraham (Ed.), Burger's Medicinal Chemistry and Drug Discovery, John Wiley & Sons, 1:611-632.

Ji, Y., D. C. Marinescu, W. Zhang, and T. S. Baker (2003) Orientation refinement of virus structures with unknown symmetry.  Proc. 17th Ann. Int'l Parallel & Distrib. Process. Symp. (Nice, France) IEEE Computer Society, Los Alamitos, Ca, ISBN 0-7695-1926-1. (PDF)

Nibert, M. L. and T. S. Baker (2003) CPV, a stable and symmetrical machine for mRNA synthesis. Structure 11:605-607. (PDF)

Bowman, V. D., P. R. Chipman, T. J. Smith, E. S. Chase, A. W. E. Franz, K. L. Perry, and T. S. Baker (2002) Cucumber mosaic virus-Fab complex examined by electron cryo-microscopy and three-dimensional image reconstruction. Proc. Microsc. Microanal. 2002 (Quebec), 852-853.

Xiao, C., C. M. Bator, P. R. Chipman, T. S. Baker, R. J. Kuhn, E. Wimmer, A. Craig, and M. G. Rossmann (2002) Pseudo-atomic structure of coxsackievirus A21 complexed with its cellular receptor, ICAM-1. Proc. Microsc. Microanal. 2002 (Quebec), 822-823. (PDF)

Zhang, X., S. B. Walker M. L. Nibert, and T. S. Baker (2002) Structure of the human reovirus virion at 9.6Å resolution. Proc. Microsc. Microanal. 2002 (Quebec), 846-847. (PDF)

Zhang, W., S. Mukhopadhyay, S. V. Pletnev, R. J. Kuhn, M. G. Rossmann, and T. S. Baker (2002) Sindbis virus reconstruction at 11Å resolution reveals details of glycoprotein and nucleocapsid organization. Proc. Microsc. Microanal. 2002 (Quebec), 208-209.

Baker, T. S. and R. Henderson (2001) Electron cryomicroscopy. Chap.19.6 In M. G. Rossmann and E. Arnold, (Eds.), International Tables for Crystallography Vol.F. Crystallography of Biological Macromolecules. Dordrecht:Kluwer Academic Publishers, The Netherlands, 451-463, 473-479. (PDF)

Henderson, R. and T. S. Baker (2001) Electron cryomicroscopy. In D. Turk and L. Johnson (Eds.), Methods in Macromolecular Crystallography, IOS Press, Ohmsha, 172-192.

Rieder, E., A. E. Gorbalenya, C. Xiao, Y. He, T. S. Baker, R. J. Kuhn, M. G. Rossmann and E. Wimmer (2001) Will the polio niche remain vacant? In F. Brown (Ed.), Progress in Polio Eradication: Vaccine Strategies for the End Game, Dev. Biol. Basel, Karger 105:1-12.

Yan, X., V. Bowman, G. Murti, R. Goorha, A. Hyatt and T. S. Baker (2001) 3D image reconstruction of frog virus 3 at 2.6nm. Proc. Microsc. Microanal. 2001 (Long Beach), 746-747.

Yan, X., P. Chipman, T. Castberg, G. Bratbak and T. S. Baker (2001) The Structure of PpV01, a marine algal virus with a T=219 capsid. Proc. Microsc. Microanal. 2001 (Long Beach), 748-749.

Baker, T. S., N. H. Olson, and S. D. Fuller (2000) Erratum:Adding the third dimension to virus life cycles: Three-Dimensional reconstruction of icosahedral viruses from cryo-electron micrographs. Microbiol. Molec. Biol. Reviews 64:237. (PDF)

Baker, T. S., N. H. Olson, M. Gingery, and F. A. Eiserling (2000) Three-dimensional structure of isometric capsids of bacteriophage T4 Proc. Microsc. Microanal. 2000 (Philadelphia), 254-255.

Rossmann, M. G., J. Bella, P. R. Kolatkar, Y. He, E. Wimmer, R. J. Kuhn and T. S. Baker (2000) Cell recognition and entry by rhino- and enteroviruses. Virology 269:239-247. (PDF)

Baker, T. S., N. H. Olson, and S. D. Fuller (1999) Adding the third dimension to virus life cycles: Three-Dimensional reconstruction of icosahedral viruses from cryo-electron micrographs. Microbiol. Molec. Biol. Reviews 63:862-922. (PDF)

Lynch, R. E., D. C. Marinescu, H. Lin, and T. S. Baker (1999) Parallel algorithms for 3D reconstruction of asymmetric objects from electron micrographs. 13th International Parallel Processing Symposium/ 10th Symposium on Parallel and Distributed Processing (San Juan, Puerto Rico), 632-637. (PDF)

Smith, T. J. and T. S. Baker (1999) Picornaviruses: epitopes, canyons, and pockets. In Maramorosch, K., Murphy, F. A. and Shatkin, A. J. (eds), Advances in Virus Research, Academic Press, 52:1-23.

Yan, X., N. H. Olson, M. Bergoin, M. G. Rossmann, and T. S. Baker (1999) CIV, an iridovirus with a pseudo T=147 capsid structure. Proc. Microsc. Microanal. 1999 (Portland), 1134-1135.

Zhang, W., N. H. Olson, P. R. Chipman, R. McKenna, and T. S. Baker (1999) The structure of maize streak virus: Are two heads better than one? Proc. Microsc. Microanal. 1999 (Portland), 1132-1133.

Stoops, J. K., Z. H. Zhou, J. P. Schroeter, S. J. Kolodziej, R. H. Cheng, T. S. Baker, D. L. B. McCarthy, M. A. Yazdi, C.-Y. Maeng, and L. J. Reed (1998) On the unique structural organization of the Saccharomyces cerevisiae pyruvate dehydrogenase complex. Proc. Microsc. Microanal. 1998 (Atlanta) 954-955.

Tao, Y., N. H. Olson, D. L. Anderson, T. S. Baker, and M. G. Rossmann (1998) Cryo-EM reconstructions of bacteriophage Φ29 isometric particles and empty mature heads. Proc. 14th Int'l. Cong. Elec. Microsc. (Cancun) 1:721-722.

Yan, X., N. H. Olson, J. L. Van Etten, and T. S. Baker (1998) Cryo-electron microscopy and image reconstruction of PBCV-1, an algal virus with T=169, icosahedral lattice symmetry. Proc. Microsc. Microanal. 1998 (Atlanta) 948-949. (PDF)

Yan, X., N. H. Olson, J. L. Van Etten, and T. S. Baker (1998) Cryo-electron microscopy and image reconstruction of PBCV-1, an algal virus with T=169 lattice symmetry. Proc. 14th Int'l. Cong. Elec. Microsc. (Cancun) 1:775-776.

Zhang, W., N. H. Olson, B. R. McKinney, R. J. Kuhn, and T. S. Baker (1998) Cryo-electron microscopy of aura viruses. Proc. Microsc. Microanal. 1998 (Atlanta) 946-947.

Baker, T. S. and J. E. Johnson (1997) Principles of virus structure determination, In W. Chiu, R. M. Burnett, and R. Garcea (eds.), Structural Biology of Viruses, Oxford Univ. Press, New York, pp. 38-79.

Chipman, P. R. , R. McKenna, J. Renaudin, and T. S. Baker (1997) Cryoelectron microscopy of spiroplasma virus SpV4. Proc. Microsc. Microanal. 1997 (Cleveland) 87-88.

Olson, N. H., P. R. Chipman, M. E. Bloom, R. McKenna, M. Agbanje-McKenna, T. F. Booth, and T. S. Baker (1997) Automated CCD data collection and 3D reconstruction of Aleutian Mink disease parvovirus. Proc. Microsc. Microanal. 1997 (Cleveland) 1117-1118.

Pan, M., N. H. Olson, and T. S. Baker (1997) Automated acquisition of cryo-electron microscope images with slow-scan CCD camera and microscope control. Proc. Microsc. Microanal. 1997 (Cleveland) 1113-1114.

Baker, T. S. and J. E. Johnson (1996) Low resolution meets high: Towards a resolution continuum from cells to atoms. Curr. Opin. Struct. Biol. 6:585-594. (PDF)

Smith, T. J., N. H. Olson, Z. Che, E. Chase, R. H. Cheng, T. S. Baker, A. G. Mosser, D. Leippe, and R. R. Rueckert (1996) Structural studies on virus-antibody interactions. In Vaccines96: Molecular approaches to the control of infectious diseases, F. Brown, E. Norrby, D. Burton, and J. Mekalanos, Eds. (Cold Spring Harb. Lab. Press), pp.161-167.

Olson, N. H., U. Lücken, S. B. Walker, M. T. Otten, and T. S. Baker (1995) Cryoelectron microscopy and image reconstruction of spherical viruses with spot scan and FEG technologies. Proc. Microsc. Microanal. 1995 (Kansas City) 1086-1087.

Cheng, R. H., N. H. Olson, T. S. Baker, R. J. Kuhn, and T. J. Smith (1995) Cryo-electron microscopy, antibody labeling, and image analysis reveals macromolecular interactions in enveloped alphaviruses. Zool. Studies 4(Suppl. 1):130-131.

Smith, T. J., A. G. Mosser, and T. S. Baker (1995) Structural studies on the mechanisms of antibody-mediated neutralization of human rhinovirus. Sem. Virol. 6:233-242. (PDF)

Johnson, J. E., S. Munshi, L. Liljas, D. Agrawal, N. H. Olson, V. Reddy, A. Fisher, B. McKinney, T. Schmidt, and T. S. Baker (1994) Comparative studies of T=3 and T=4 icosahedral RNA insect viruses. Arch. Virol. 9:497-512.

Rossmann, M. G., N. H. Olson, P. R. Kolatkar, M. A. Oliveria, R. H. Cheng, J. M. Greve, A. McClelland, and T. S. Baker (1994) Crystallographic and cryoEM analysis of virion-receptor interactions. Arch. Virol. 9:531-541 .

Baker, T. S., R. H. Cheng, V. S. Reddy, N. H. Olson, A. J. Fisher, and J. E. Johnson (1994) Cryo-electron microscopy and X-ray crystallographic studies of Flock House virus, a T=3 icosahedral animal virus. Proc. 13th Intern. Cong. Elec. Microsc. (Paris). 3A:525-526.

Baker, T. S. (1992) Cryo-electron microscopy and three-dimensional image reconstruction of icosahedral viruses. 10th Europ. Cong. Elec. Microsc. (Granada) 3:275-279.

Baker, T. S., R. H. Cheng, J. E. Johnson, N. H. Olson, G. J. Wang, and T. S. Schmidt (1992) Organized packing of RNA inside viruses as revealed by cryo-electron microscopy and X-ray diffraction analysis. Proc. Elec. Microsc. Soc. Amer. (Boston) 50:454-455.

Belnap, D. M., N. H. Olson, W. D. Grochulski, and T. S. Baker (1992) The use of radial density plots to calibrate images of frozen-hydrated specimens. Proc. Elec. Microsc. Soc. Amer. (Boston) 50:998-999.

Olson, N. H., T. J. Smith, P. R. Kolatkar, M. A. Oliveria, R. R. Rueckert, J. M. Greve, M. G. Rossmann, and T. S. Baker (1992) Cryoelectron microscopy of complexes of human rhinovirus with a monoclonal Fab and the viral cellular receptor. Proc. Elec. Microsc. Soc. Amer. (Boston) 50:524-525.

Wang, G., C. Porta, Z. Chen, R. H. Cheng, T. S. Baker, and J. E. Johnson (1992) The analysis of a spherical virus-Fab interaction by cryo-electron microscopy and X-ray crystallography. Fifth Asia-Pacific Elec. Microsc. Conf. (Beijing) 2:158-159.

Olson, N. H., W. Xu, W. D. Grochulski, D. L. Anderson, and T. S. Baker (1990) Electron microscopy of negatively-stained and frozen-hydrated bacteriophage Φ29. Proc. XIIth Intl. Cong. Elec. Microsc. 1:270-271.

Wang, G., K. A. Dryden, K. M. Coombs, D. B. Furlong, and T. S. Baker (1990) Cryo-electron microscopy of reovirus intermediate subviral particles. Proc. XIIth Intl. Cong. Elec. Microsc. 1:276-277.

Baker, T. S., N. H. Olson, W. W. Newcomb, J. C. Brown, and C. Olson (1989) Electron microscopy of stained and unstained bovine papilloma virus: comparison with polyoma virus. Proc. Elec. Microsc. Soc. Amer. (San Antonio) 47:820-821.

Baker, T. S., W. W. Newcomb, F. P. Booy, J. C. Brown, and A. C. Steven (1989) Three-dimensional reconstructions of 'light' and 'intermediate' capsids of equine herpes virus". Proc. Elec. Microsc. Soc. Amer. (San Antonio) 47:822-823.

Cheng, R. H., N. H. Olson, and T. S. Baker (1989) Cryo-electron microscopy of cauliflower mosaic virus. Proc. Elec. Microsc. Soc. Amer. (San Antonio) 47:824-825.

Olson, N. H., and T. S. Baker (1988) Diameter determination of frozen-hydrated virions using polyoma virus as a calibration standard. Proc. Elec. Microsc. Soc. Amer. (Milwaukee) 46:166-167.

Baker, T. S., and I. Rayment (1987) Papovaviridae. In M. V. Nermut and A. C. Steven (eds.), Manual of Animal Virus Research. Elsevier Science Publisher B. V., Amsterdam, pp. 335-348.

Olson, N. H., T. S. Baker, W. B. Mu, J. E. Johnson, and D. A. Hendry (1987) The three-dimensional structure of frozen-hydrated Nudaurelia capensis β virus. Proc. Elec. Micros. Soc. Amer. (Baltimore) 45:650-651.

Baker, T. S., and D. A. Winkelmann (1986) Methodology for determining the three-dimensional crystal structure of myosin S1 from electron microscopy of orthogonal thin-sections. Proc. Elec. Microsc. Soc. Amer. (Albuquerque) 44:26-29.

Baker, T. S., J. Drak, and M. Bina (1985) Cryo-electron microscopy and image analysis of SV40. Proc. Elec. Microsc. Soc. Amer. (Louisville) 43:316-317.

Baker, T. S., and D. L. D. Caspar (1983) Pentamer packing in polyoma virus "hexamer" tubes analyzed by image modeling. Proc. Elec. Microsc. Soc. Amer. (Phoenix) 41:458-459.

Baker, T. S., and D. L. D. Caspar (1983) Modeling connexon skewing in gap junction lattices. Proc. Elec. Microsc. Soc. Amer. (Phoenix) 41:744-745.

Baker, T. S. (1981) Image processing of biological specimens: a bibliography, p. 189-290. In J. D. Griffith (ed.), Electron Microscopy in Biology, Vol. 1, Ch. 6. John Wiley and Sons, New York.

Baker, T. S. (1978) Preirradiation and minimum beam microscopy of periodic biological specimens. Proc. Ninth Intl. Cong. Elec. Microsc. (Toronto) 2:2-3.

Baker, T. S. (1978) The packing of cowpea chlorotic mottle virus in crystalline monolayers. Proc. Ninth Intl. Cong. Elec. Microsc. (Toronto) 2:24-25.

Baker, T. S., and L. A. Amos (1978) The structure of the tubulin heterodimer in zinc-induced sheets. Proc. Ninth Intl. Cong. Elec. Microsc. (Toronto) 2:272-273.

Eisenberg, D., T. S. Baker, S. W. Suh, and W. W. Smith (1978) Structural studies of ribulose-1,5-bisphosphate carboxylase/oxygenase. In H. W. Siegelman and G. Hind (eds.), Photosynthetic Carbon Assimilation, p. 271-281. Plenum Publishing Corp., New York.