| 234. | T. Lezon, A. Sali, I. Bahar. Global motions of the nuclear pore complex:Insights from Elastic Network Models. PLoS Computational Biology, in press. |
| 233. | D. Barkan, D. Hostetter, S. Mahrus, U. Pieper, J. Wells, C. Craik, A. Sali. Prediction of Protease Substrates using Sequence and Structural Features. submitted. |
| 232. | D.J. Taylor, B. Devkota, A.D. Huang, M. Topf, N. Eswar, A. Sali, S.C. Harvey, J. Frank. Comprehensive Atomic Model of the Eukaryotic Ribosome. submitted. |
| 231. | F.P. Davis, A. Sali. The overlap of small molecule and protein binding sites within families of protein structures. submitted. |
| 230. | S. Nickell, F. Beck, S.H.W. Scheres, A. Korinek, F. Forster, K. Lasker, O. Mihalache, N. Sun, I. Nagy, A. Sali, J. Plitzko, J.-M. Carazo, M. Mann, W. Baumeister. Molecular Architecture of the 26S Proteasome. Proceedings of the National Academy of Sciences USA, in press. |
| 229. | O. Fornes, R. Aragues, J. Espadaler, M.A. Marti-Renom, A. Sali, B. Oliva. ModLink+: Improving fold recognition by using protein-protein interactions. Bioinformatics 25, 1506-1512, 2009. PMC2687990   |
| 228. | H. Fan, N. Eswar, J.J. Irwin, A. Sali, B. Shoichet. Virtual Ligand Screening Using Comparative Models of Proteins. submitted. |
| 227. | L. Orti, R.J. Carbajo, U. Pieper, N. Eswar, S.M. Maurer, A.K. Rai, G. Taylor, M.H. Todd, A. Pineda-Lucena, A. Sali, M.A. Marti-Renom. A kernel for the Tropical Disease Initiative. Nature Biotechnology 27, 320-321, 2009. |
| 226. | R.M. Stroud, S. Choe, J. Holton, H.R. Kaback, W. Kwiatkowski, D.L. Minor, R. Riek, A. Sali, H. Stahlberg, W. Harries. 2007 Annual progress report synopsis of the Center for Structures of Membrane Proteins. Journal of Structural and Functional Genomics 10, 193-208, 2009. |
| 225. | K.C. Pandey, D.T. Barkan, A. Sali, P.J. Rosenthal. Regulatory elements within the prodomain of falcipain-2, a cysteine protease of the malaria parasite Plasmodium falciparum. PLoS One 4(5):e5694, 2009. PMC2682653 |
| 224. | L. Orti, R.J. Carbajo, U. Pieper, N. Eswar, S.M. Maurer, A.K. Rai, G. Taylor, M.H. Todd, A. Pineda-Lucena, A. Sali, M.A. Marti-Renom. A kernel for open source drug discovery in tropical diseases. PLoS Neglected Tropical Diseases 3, e418, 2009. PMC2667270 |
| 223. | T. Schwede, A. Sali, B. Honig, M. Levitt, H.M. Berman, D. Jones, S.E. Brenner, S.K. Burley, R. Das, N.V. Dokholyan, R.L. Dunbrack Jr, K. Fidelis, A. Fiser, A. Godzik, Y.J. Huang, C. Humblet, M.P. Jacobson, A. Joachimiak, S.R. Krystek Jr, T. Kortemme, A. Kryshtafovych, G.T. Montelione, J. Moult, D. Murray, R. Sanchez, T.R. Sosnick, D.M. Standley, T. Stouch, S. Vajda, M. Vasquez, J.D. Westbrook, I.A. Wilson. Outcome of a workshop on applications of protein models in biomedical research. Structure 17, 151-159, 2009. PMCID TBD by Journal. |
| 222. | D. Russel, K. Lasker, J. Phillips, D. Schneidman-Duhovny, J.A. Velazquez-Muriel, A. Sali. The structural dynamics of macromolecular processes. Current Opinion in Cell Biology 21, 97-108, 2009. PMCID TBD by Journal. |
| 221. | M.E. Peterson, F. Chen, J.G. Saven, D.S. Roos, P.C. Babbitt, A. Sali. Evolutionary constraints on structural similarity in orthologs and paralogs. Protein Science 18, 1306-1315, 2009. PMCID TBD by Journal. |
| 220. | M. Li, F.A. Hays, Z. Roe-Zurz, L. Vuong, L. Kelly, C.M. Ho, R.M. Robbins, U. Pieper, J.D. O'Connell 3rd, L.J. Miercke, K.M. Giacomini, A. Sali, R.M. Stroud. Selecting optimum eukaryotic integral membrane proteins for structure determination by rapid expression and solubilization screening. Journal of Molecular Biology 385, 820-830, 2009. PMC2659619 |
| 219. | F.A. Hays, Z. Roe-Zurz, M. Li, L. Kelly, F. Gruswitz, A. Sali, R.M. Stroud. Ratiocinative screen of eukaryotic integral membrane protein expression and solubilization for structure determination. Journal of Structural and Functional Genomics 10, 9-16, 2009. |
| 218. | J.A. DeGrasse, K.N. DuBois, D. Devos, T.N. Siegel, A. Sali, M.C. Field, M.P. Rout, B.T. Chait. The Establishment of Nuclear Pore Complex Architecture Occurred Early in Evolution. Molecular and Cellular Proteomics, in press, 2009. |
| 217. | U. Pieper, N. Eswar, B.M. Webb, D. Eramian, L. Kelly, D.T. Barkan, H. Carter, P. Mankoo, R. Karchin, M.A. Marti-Renom, F.P. Davis, A. Sali. MODBASE, a database of annotated comparative protein structure models and associated resources. Nucleic Acids Research 37, D347-354, 2009. PMC2686492 |
| 216. | U. Pieper, R. Chiang, J.J. Seffernick, S.D. Brown, M.E. Glasner, L. Kelly, N. Eswar, J.M. Sauder, J.B. Bonanno, S. Swaminathan, S.K. Burley, X. Zheng, M.R. Chance, S.C. Almo, J.A. Gerlt, F.M. Raushel, M.P. Jacobson, P.C. Babbitt, A. Sali. Target selection and annotation for the structural genomics of the amidohydrolase and enolase superfamilies. Journal of Structural and Functional Genomics 10, 107-125, 2009. PMC2693957 |
| 215. | K. Lasker, M. Topf, A. Sali, H.J. Wolfson. Inferential optimization for simultaneous fitting of multiple components into a cryoEM map of their assembly. Journal of Molecular Biology 388, 180-194, 2009. PMC2680734 |
| 214. | I.I. Serysheva, S.J. Ludtke, M.L. Baker, Y. Cong, M. Topf, D. Eramian, A. Sali, S.L. Hamilton, W. Chiu. Subnanometer-resolution electron cryomicroscopy-based domain models for the cytoplasmic region of skeletal muscle RyR channel. Proceedings of the National Academy of Sciences USA 105, 9610-9615, 2008. PMC2474495 |
| 213. | S. Mahrus, J.C. Trinidad, D.T. Barkan, A. Sali, A.L. Burlingame, J.A. Wells. Global Sequencing of Proteolytic Cleavage Sites in Apoptosis by Specific Labeling of Protein N Termini. Cell 134, 866-876, 2008. PMC2566540 |
| 212. | R.A. Chiang, A. Sali, P.C. Babbitt. Evolutionarily conserved substrate substructures for automated annotation of enzyme superfamilies. PLoS Computational Biology 4, e1000142, 2008. PMC2453236 |
| 211. | N. Eswar, A. Sali. Protein Structure Modeling. In: From Molecules to Medicine, Structure of Biological Macromolecules and Its Relevance in Combating New Diseases and Bioterrorism. Ed: J.L. Sussman, P. Spadon, pp. 139-151, Springer-Verlag, Dordrecht, The Netherlands, 2009. |
| 210. | M.F. Kim, A. Sali, V. Dotsch, M.L. Reese. Efficient computational identification and docking of macromolecular interfaces using ambiguous NMR constraints. submitted. |
| 209. | M.S. Madhusudhan, M.A. Marti-Renom, N. Eswar, A. Sali. Alignment of multiple protein structures based on sequence and structure features. Protein Engineering, Design, and Selection, in press. |
| 208. | C.M. Anderson, D. Korkin, D.L. Smith, S. Makovets, J.J. Seidel, A. Sali, E.H. Blackburn. Tel2 mediates activation and localization of ATM/Tel1 kinase to a double-strand break. Genes and Development 22, 854-859, 2008. PMC2279195 |
| 207. | F. Forster, B. Webb, K.A. Krukenberg, H. Tsuruta, D.A. Agard, A. Sali. Integration of small-angle X-ray scattering data into structural modeling of proteins and their assemblies. Journal of Molecular Biology 382, 1089-1106, 2008. PMCID TBD by Journal. |
| 206. | L. Kelly, U. Pieper, F.A. Hays, N. Eswar, D. Kroetz, K.M. Giacomini, R.M. Stroud, A. Sali. A taxonomic profile of the membrane protein universe. Journal of Structural and Functional Genomics, in press. |
| 205. | D. Eramian, N. Eswar, M.Y. Shen, A. Sali. How well can the accuracy of comparative protein structure models be predicted? Protein Science 17, 1881-1893, 2008. PMC2578807 |
| 204. | K.A. Krukenberg, F. Forster, L.M. Rice, A. Sali, D.A. Agard. Multiple conformations of E. coli Hsp90 in solution: insights into the conformational dynamics of Hsp90. Structure 16, 755-765, 2008. PMC2600884 |
| 203. | R. Karchin, M. Agarwal, A. Sali, F. Couch, M.S. Beattie. Classifying Variants of Undetermined Significance in BRCA2 with Protein Likelihood Ratios. Cancer Informatics 6, 203-216, 2008. PMC2587343 |
| 202. | F. Aguero, B. Al-Lazikani, M. Aslett, M. Berriman, F.S. Buckner, R.K. Campbell, S. Carmona, I.M. Carruthers, A.W. Chan, F. Chen, G.J. Crowther, M.A. Doyle, C. Hertz-Fowler, A.L. Hopkins, G. McAllister, S. Nwaka, J.P. Overington, A. Pain, G.V. Paolini, U. Pieper, S.A. Ralph, A. Riechers, D.S. Roos, A. Sali, D. Shanmugam, T. Suzuki, W.C. Van Voorhis, C.L. Verlinde. Genomic-scale prioritization of drug targets: the TDR Targets database. Nature Reviews Drug Discovery 7, 900-907, 2008. PMCID TBD by Journal. |
| 201. | J. Espadaler, N. Eswar, E. Querol, F.X. Aviles, A. Sali, M.A. Marti-Renom, B. Oliva. Prediction of enzyme function by combining sequence similarity and protein interactions. BMC Bioinformatics 9, 249, 2008. PMC2430716 |
| 200. | M. Topf, K. Lasker, B. Webb, H. Wolfson, W. Chiu, A. Sali. Protein structure fitting and refinement guided by cryo-EM density. Structure 16, 295-307, 2008. PMC2409374 |
| 199. | F. Alber, F. Forster, D. Korkin, M. Topf, A. Sali. Integrating diverse data for structure determination of macromolecular assemblies. Annual Review of Biochemistry 77, 443-477, 2008. |
| 198. | P. Chandramouli, M. Topf, J.F. Menetret, N. Eswar, J.J. Cannone, R.R. Gutell, A. Sali, C.W. Akey. Structure of the mammalian 80S ribosome at 8.7 A resolution. Structure 16, 535-548, 2008. |
| 197. | F. Alber, B.T. Chait, M.P. Rout, A. Sali. Integrative Structure Determination of Protein Assemblies by Satisfaction of Spatial Restraints. In: Protein-protein interactions and networks: identification, characterization and prediction. Ed: A. Panchenko, T. Przytycka, pp. 99-114, Springer-Verlag, London, UK, 2008. |
| 196. | S.K. Burley, S.C. Almo, J.B. Bonanno, M.R. Chance, S. Emtage, A. Fiser, A. Sali, J.M. Sauder, S. Swaminathan. Structure Genomics of Protein Superfamilies. In: Structural Bioinformatics, 2nd Edition. Ed: J. Gu, P.E. Bourne, Wiley-Blackwell, New York, NY, 2008. |
| 195. | C.R. Booth, A.S. Meyer, Y. Cong, M. Topf, A. Sali, S.J. Ludtke, W. Chiu, J. Frydman. Mechanism of lid closure in the eukaryotic chaperonin TRiC/CCT. Nature Structural and Molecular Biology 15, 746-753, 2008. PMC2546500 |
| 194. | Y. Cong, M. Topf, A. Sali, P. Matsudaira, M. Dougherty, W. Chiu, M.F. Schmid. Crystallographic conformers of actin in a biologically active bundle of filaments. Journal of Molecular Biology 375, 331-336, 2008. PMC2680129 |
| 193. | T. Schwede, A. Sali, N. Eswar, M.C. Peitsch. Protein Structure Modeling. In: Computational Structural Biology. Ed: T. Schwede, M.C. Peitsch, pp. 3-35, World Scientific Publishing Ltd., Singapore, 2008. |
| 192. | N. Eswar, D. Eramian, B. Webb, M.Y. Shen, A. Sali. Protein structure modeling with MODELLER. Methods in Molecular Biology 426, 145-159, 2008. |
| 191. | F. Alber, S. Dokudovskaya, L.M. Veenhoff, W. Zhang, J. Kipper, D. Devos, A. Suprapto, O. Karni-Schmidt, R. Williams, B.T. Chait, M.P. Rout, A. Sali. Determining the architectures of macromolecular assemblies. Nature 450, 683-694, 2007. |
| 190. | F. Alber, S. Dokudovskaya, L.M. Veenhoff, W. Zhang, J. Kipper, D. Devos, A. Suprapto, O. Karni-Schmidt, R. Williams, B.T. Chait, A. Sali, M.P. Rout. The molecular architecture of the nuclear pore complex. Nature 450, 695-701, 2007. |
| 189. | C.V. Robinson, A. Sali, W. Baumeister. The molecular sociology of the cell. Nature 450, 973-982, 2007. |
| 188. | N. Eswar, B. Webb, M.A. Marti-Renom, M.S. Madhusudhan, D. Eramian, M.Y. Shen, U. Pieper, A. Sali. Comparative protein structure modeling using MODELLER. Current Protocols in Protein Science Chapter 2, Unit 2 9, 2007. |
| 187. | A. Sali, C.D. Lima, M. Kostic. Structural genomics. Structure 15, 1341, 2007. |
| 186. | F. Melo, A. Sali. Fold assessment for comparative protein structure modeling. Protein Science 16, 2412-2426, 2007. |
| 185. | S.C. Almo, J.B. Bonanno, J.M. Sauder, S. Emtage, T.P. Dilorenzo, V. Malashkevich, S.R. Wasserman, S. Swaminathan, S. Eswaramoorthy, R. Agarwal, D. Kumaran, M. Madegowda, S. Ragumani, Y. Patskovsky, J. Alvarado, U.A. Ramagopal, J. Faber-Barata, M.R. Chance, A. Sali, A. Fiser, Z.Y. Zhang, D.S. Lawrence, S.K. Burley. Structural genomics of protein phosphatases. Journal of Structural and Functional Genomics 8, 121-140, 2007. |
| 184. | F.P. Davis, D.T. Barkan, N. Eswar, J.H. McKerrow, A. Sali. Host pathogen protein interactions predicted by comparative modeling. Protein Science 16, 2585-2596, 2007. |
| 183. | M.A. Marti-Renom, U. Pieper, M.S. Madhusudhan, A. Rossi, N. Eswar, F.P. Davis, F. Al-Shahrour, J. Dopazo, A. Sali. DBAli tools: mining the protein structure space. Nucleic Acids Research 35, W393-397, 2007. |
| 182. | M.A. Marti-Renom, A. Rossi, F. Al-Shahrour, F.P. Davis, U. Pieper, J. Dopazo, A. Sali. The AnnoLite and AnnoLyze programs for comparative annotation of protein structures. BMC Bioinformatics 8 Suppl 4, S4, 2007. |
| 181. | R. Aragues, A. Sali, J. Bonet, M.A. Marti-Renom, B. Oliva. Characterization of protein hubs by inferring interacting motifs from protein interactions. PLoS Computational Biology 3, 1761-1771, 2007. |
| 180. | K. Bajaj, M.S. Madhusudhan, B.V. Adkar, P. Chakrabarti, C. Ramakrishnan, A. Sali, R. Varadarajan. Stereochemical criteria for prediction of the effects of proline mutations on protein stability. PLoS Computational Biology 3, e241, 2007. |
| 179. | N. Soranzo, L. Kelly, L. Martinian, M.W. Burley, M. Thom, A. Sali, D.L. Kroetz, D.B. Goldstein, S.M. Sisodiya. Lack of support for a role for RLIP76 (RALBP1) in response to treatment or predisposition to epilepsy. Epilepsia 48, 674-683, 2007. |
| 178. | E. Feyfant, A. Sali, A. Fiser. Modeling mutations in protein structures. Protein Science 16, 2030-2041, 2007. |
| 177. | S.X. Wang, K.C. Pandey, J. Scharfstein, J. Whisstock, R.K. Huang, J. Jacobelli, R.J. Fletterick, P.J. Rosenthal, M. Abrahamson, L.S. Brinen, A. Rossi, A. Sali, J.H. McKerrow. The structure of chagasin in complex with a cysteine protease clarifies the binding mode and evolution of an inhibitor family. Structure 15, 535-543, 2007. |
| 176. | M.A. Carvalho, S.M. Marsillac, R. Karchin, S. Manoukian, S. Grist, R.F. Swaby, T.P. Urmenyi, E. Rondinelli, R. Silva, L. Gayol, L. Baumbach, R. Sutphen, J.L. Pickard-Brzosowicz, K.L. Nathanson, A. Sali, D. Goldgar, F.J. Couch, P. Radice, A.N. Monteiro. Determination of cancer risk associated with germ line BRCA1 missense variants by functional analysis. Cancer Research 67, 1494-1501, 2007. |
| 175. | N. Eswar, A. Sali. Comparative Modeling of Drug Target Proteins. In: Volume 4 Computer-Assisted Drug Design, Comprehensive Medicinal Chemistry II. Ed: J. Taylor, D. Triggle, J.S. Mason, pp. 215-236, Elsevier Ltd, Oxford, UK, 2007. |
| 174. | L. Kelly, R. Karchin, A. Sali. Protein interactions and disease phenotypes in the ABC transporter superfamily. Pacific Symposium on Biocomputing, 51-63, 2007. |
| 173. | R. Karchin, A.N. Monteiro, S.V. Tavtigian, M.A. Carvalho, A. Sali. Functional Impact of Missense Variants in BRCA1 Predicted by Supervised Learning. PLoS Computational Biology 3, e26, 2007. |
| 172. | V.D. Winn, R. Haimov-Kochman, A.C. Paquet, Y.J. Yang, M.S. Madhusudhan, M. Gormley, K.T. Feng, D.A. Bernlohr, S. McDonagh, L. Pereira, A. Sali, S.J. Fisher. Gene expression profiling of the human maternal-fetal interface reveals dramatic changes between midgestation and term. Endocrinology 148, 1059-1079, 2007. |
| 171. | M.Y. Shen, A. Sali. Statistical potential for assessment and prediction of protein structures. Protein Science 15, 2507-2524, 2006. |
| 170. | A. Colubri, A.K. Jha, M.Y. Shen, A. Sali, R.S. Berry, T.R. Sosnick, K.F. Freed. Minimalist representations and the importance of nearest neighbor effects in protein folding simulations. Journal of Molecular Biology 363, 835-857, 2006. |
| 169. | H.M. Berman, S.K. Burley, W. Chiu, A. Sali, A. Adzhubei, P.E. Bourne, S.H. Bryant, R.L. Dunbrack Jr., K. Fidelis, J. Frank, A. Godzik, K. Henrick, A. Joachimiak, B. Heymann, D. Jones, J.L. Markley, J. Moult, G.T. Montelione, C. Orengo, M.G. Rossmann, B. Rost, H. Saibil, T. Schwede, D.M. Standley, J.D. Westbrook. Outcome of a workshop on archiving structural models of biological macromolecules. Structure 14, 1211-1217, 2006. |
| 168. | T.D. Nguyen, J.M. Gow, L.W. Chinn, L. Kelly, H. Jeong, C.C. Huang, D. Stryke, M. Kawamoto, S.J. Johns, E. Carlson, T. Taylor, T.E. Ferrin, A. Sali, K.M. Giacomini, D.L. Kroetz. PharmGKB submission update: IV. PMT submissions of genetic variations in ATP-Binding cassette transporters to the PharmGKB network. Pharmacological Reviews 58, 1-2, 2006. |
| 167. | F.P. Davis, H. Braberg, M.Y. Shen, U. Pieper, A. Sali, M.S. Madhusudhan. Protein complex compositions predicted by structural similarity. Nucleic Acids Research 34, 2943-2952, 2006. |
| 166. | A. Rossi, M.A. Marti-Renom, A. Sali. Localization of binding sites in protein structures by optimization of a composite scoring function. Protein Science 15, 2366-2380, 2006. |
| 165. | N. Eswar, B. Webb, M.A. Marti-Renom, M.S. Madhusudhan, D. Eramian, M.Y. Shen, U. Pieper, A. Sali. Comparative protein structure modeling using Modeller. Current Protocols in Bioinformatics Chapter 5, Unit 5.6, 2006. |
| 164. | S. Dokudovskaya, R. Williams, D. Devos, A. Sali, B.T. Chait, M.P. Rout. Protease accessibility laddering: a proteomic tool for probing protein structure. Structure 14, 653-660, 2006. |
| 163. | D. Eramian, M.Y. Shen, D. Devos, F. Melo, A. Sali, M.A. Marti-Renom. A composite score for predicting errors in protein structure models. Protein Science 15, 1653-1666, 2006. |
| 162. | D. Korkin, F.P. Davis, F. Alber, T. Luong, M.Y. Shen, V. Lucic, M.B. Kennedy, A. Sali. Structural modeling of protein interactions by analogy: application to PSD-95. PLoS Computational Biology 2, e153, 2006. |
| 161. | M. Topf, M.L. Baker, M.A. Marti-Renom, W. Chiu, A. Sali. Refinement of protein structures by iterative comparative modeling and CryoEM density fitting. Journal of Molecular Biology 357, 1655-1668, 2006. |
| 160. | U. Pieper, N. Eswar, F.P. Davis, H. Braberg, M.S. Madhusudhan, A. Rossi, M. Marti-Renom, R. Karchin, B.M. Webb, D. Eramian, M.Y. Shen, L. Kelly, F. Melo, A. Sali. MODBASE: a database of annotated comparative protein structure models and associated resources. Nucleic Acids Research 34, D291-295, 2006. |
| 159. | C. Lima, J. Puglisi, A. Sali, L. Szewczak. Editorial. Structure 14, 801, 2006. |
| 158. | M.S. Madhusudhan, M.A. Marti-Renom, R. Sanchez, A. Sali. Variable gap penalty for protein sequence-structure alignment. Protein Engineering, Design & Selection 19, 129-133, 2006. |
| 157. | D. Devos, S. Dokudovskaya, R. Williams, F. Alber, N. Eswar, B.T. Chait, M.P. Rout, A. Sali. Simple fold composition and modular architecture of the nuclear pore complex. Proceedings of the National Academy of Sciences U S A 103, 2172-2177, 2006. |
| 156. | S.A. McMahon, J.L. Miller, J.A. Lawton, D.E. Kerkow, A. Hodes, M.A. Marti-Renom, S. Doulatov, E. Narayanan, A. Sali, J.F. Miller, P. Ghosh. The C-type lectin fold as an evolutionary solution for massive sequence variation. Nature Structural Molecular Biology 12, 886-892, 2005. |
| 155. | M. Topf, A. Sali. Combining electron microscopy and comparative protein structure modeling. Current Opinion in Structural Biology 15, 578-585, 2005. |
| 154. | J.B. Bonanno, S.C. Almo, A. Bresnick, M.R. Chance, A. Fiser, S. Swaminathan, J. Jiang, F.W. Studier, L. Shapiro, C.D. Lima, T.M. Gaasterland, A. Sali, K. Bain, I. Feil, X. Gao, D. Lorimer, A. Ramos, J.M. Sauder, S.R. Wasserman, S. Emtage, K.L. D'Amico, S.K. Burley. New York-Structural GenomiX Research Consortium (NYSGXRC): a large scale center for the protein structure initiative. Journal of Structural and Functional Genomics 6, 225-232, 2005. |
| 153. | M.Y. Shen, F.P. Davis, A. Sali. The optimal size of a globular protein domain: A simple sphere-packing model. Chemical Physics Letters 405, 224-228, 2005. |
| 152. | D. Korkin, F.P. Davis, A. Sali. Localization of protein-binding sites within families of proteins. Protein Science 14, 2350-2360, 2005. |
| 151. | A. Sali, W. Chiu. Macromolecular assemblies highlighted. Structure 13, 339-341, 2005. |
| 150. | J. Dvorak, M. Delcroix, A. Rossi, V. Vopalensky, M. Pospisek, M. Sedinova, L. Mikes, M. Sajid, A. Sali, J.H. Mckerrow, P. Horak, C.R. Caffrey. Multiple cathepsin B isoforms in schistosomula of Trichobilharzia regenti: Identification, characterization and putative role in migration and nutrition. International Journal of Parasitology 35, 895-910, 2005. |
| 149. | S. Yasuda, N. Morokawa, G.W. Wong, A. Rossi, M.S. Madhusudhan, A. Sali, Y.S. Askew, R. Adachi, G.A. Silverman, S.A. Krilis, R.L. Stevens. Urokinase-type plasminogen activator is a preferred substrate of the human epithelium serine protease tryptase epsilon/PRSS22. Blood 105, 3893-3901, 2005. |
| 148. | R. Karchin, M. Diekhans, L. Kelly, D.J. Thomas, U. Pieper, N. Eswar, D. Haussler, A. Sali. LS-SNP: large-scale annotation of coding non-synonymous SNPs based on multiple information sources. Bioinformatics 21, 2814-2820, 2005. |
| 147. | F.P. Davis, A. Sali. PIBASE: a comprehensive database of structurally defined protein interfaces. Bioinformatics 21, 1901-1907, 2005. |
| 146. | F. Alber, M.F. Kim, A. Sali. Structural characterization of assemblies from overall shape and subcomplex compositions. Structure 13, 435-445, 2005. |
| 145. | M.S. Madhusudhan, M.A. Marti-Renom, N. Eswar, B. John, U. Pieper, R. Karchin, M.i.n.-.y.i. Shen, A. Sali. Comparative Protein Structure Modeling. In: Proteomics Protocols Handbook. Ed: J.M. Walker, pp. 831-860, Humana Press Inc., Totowa, NJ, 2005. |
| 144. | R. Karchin, L. Kelly, A. Sali. Improving functional annotation of non-synonomous SNPs with information theory. Pacific Symposium on Biocomputing, 397-408, 2005. |
| 143. | M. Topf, M.L. Baker, B. John, W. Chiu, A. Sali. Structural characterization of components of protein assemblies by comparative modeling and electron cryo-microscopy. Journal of Structural Biology 149, 191-203, 2005. |
| 142. | J. Espadaler, R. Aragues, N. Eswar, M.A. Marti-Renom, E. Querol, F.X. Aviles, A. Sali, B. Oliva. Detecting remotely related proteins by their interactions and sequence similarity. Proceedings of the National Academy of Sciences U S A 102, 7151-7156, 2005. |
| 141. | S.M. Maurer, A. Rai, A. Sali. Finding Cures for Tropical Diseases: Is Open Source an Answer? PLoS Medicine 1, e56, 2004. |
| 140. | D. Devos, S. Dokudovskaya, F. Alber, R. Williams, B.T. Chait, A. Sali, M.P. Rout. Components of coated vesicles and nuclear pore complexes share a common molecular architecture. PLoS Biology 2, e380, 2004. |
| 139. | R.B. Russell, F. Alber, P. Aloy, F.P. Davis, D. Korkin, M. Pichaud, M. Topf, A. Sali. A structural perspective on protein-protein interactions. Current Opinion in Structural Biology 14, 313-324, 2004. |
| 138. | M. Jacobson, A. Sali. Comparative Protein Structure Modeling and Its Applications to Drug Discovery. In: Annual Reports in Medicinal Chemistry. Ed: J. Overington, 39, pp. 259-276, Inpharmatica Ltd., London, 2004. |
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