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Enhancing UCSF Chimera through web services.
Published in:
Nucleic Acids Research, 2014, v. 42, n. W1, p. W478, doi. 10.1093/nar/gku377
By:
- Huang, Conrad C.;
- Meng, Elaine C.;
- Morris, John H.;
- Pettersen, Eric F.;
- Ferrin, Thomas E.
Publication type:
Article
The Structure–Function Linkage Database.
Published in:
Nucleic Acids Research, 2014, v. 42, n. D1, p. D521, doi. 10.1093/nar/gkt1130
By:
- Akiva, Eyal;
- Brown, Shoshana;
- Almonacid, Daniel E.;
- Barber, Alan E.;
- Custer, Ashley F.;
- Hicks, Michael A.;
- Huang, Conrad C.;
- Lauck, Florian;
- Mashiyama, Susan T.;
- Meng, Elaine C.;
- Mischel, David;
- Morris, John H.;
- Ojha, Sunil;
- Schnoes, Alexandra M.;
- Stryke, Doug;
- Yunes, Jeffrey M.;
- Ferrin, Thomas E.;
- Holliday, Gemma L.;
- Babbitt, Patricia C.
Publication type:
Article
ModBase, a database of annotated comparative protein structure models, and associated resources.
Published in:
Nucleic Acids Research, 2011, v. 39, n. suppl_1, p. D465, doi. 10.1093/nar/gkq1091
By:
- Pieper, Ursula;
- Webb, Benjamin M.;
- Barkan, David T.;
- Schneidman-Duhovny, Dina;
- Schlessinger, Avner;
- Braberg, Hannes;
- Yang, Zheng;
- Meng, Elaine C.;
- Pettersen, Eric F.;
- Huang, Conrad C.;
- Datta, Ruchira S.;
- Sampathkumar, Parthasarathy;
- Madhusudhan, Mallur S.;
- Sjölander, Kimmen;
- Ferrin, Thomas E.;
- Burley, Stephen K.;
- Sali, Andrej
Publication type:
Article
The scalable precision medicine open knowledge engine (SPOKE): a massive knowledge graph of biomedical information.
Published in:
Bioinformatics, 2023, v. 39, n. 2, p. 1, doi. 10.1093/bioinformatics/btad080
By:
- Morris, John H;
- Soman, Karthik;
- Akbas, Rabia E;
- Zhou, Xiaoyuan;
- Smith, Brett;
- Meng, Elaine C;
- Huang, Conrad C;
- Cerono, Gabriel;
- Schenk, Gundolf;
- Rizk-Jackson, Angela;
- Harroud, Adil;
- Sanders, Lauren;
- Costes, Sylvain V;
- Bharat, Krish;
- Chakraborty, Arjun;
- Pico, Alexander R;
- Mardirossian, Taline;
- Keiser, Michael;
- Tang, Alice;
- Hardi, Josef
Publication type:
Article
Superfamily active site templates.
Published in:
Proteins, 2004, v. 55, n. 4, p. 962, doi. 10.1002/prot.20099
By:
- Meng, Elaine C.;
- Polacco, Benjamin J.;
- Babbitt, Patricia C.
Publication type:
Article
Biocuration in the structure-function linkage database: the anatomy of a superfamily.
Published in:
Database: The Journal of Biological Databases & Curation, 2017, v. 2017, n. 1, p. 1, doi. 10.1093/database/bax006
By:
- Holliday, Gemma L.;
- Brown, Shoshana D.;
- Akiva, Eyal;
- Mischel, David;
- Hicks, Michael A.;
- Morris, John H.;
- Huang, Conrad C.;
- Meng, Elaine C.;
- Pegg, Scott C.-H.;
- Ferrin, Thomas E.;
- Babbitt, Patricia C.
Publication type:
Article
Tools for integrated sequence-structure analysis with UCSF Chimera.
Published in:
BMC Bioinformatics, 2006, v. 7, p. 339, doi. 10.1186/1471-2105-7-339
By:
- Meng, Elaine C;
- Pettersen, Eric F;
- Couch, Gregory S;
- Huang, Conrad C;
- Ferrin, Thomas E
Publication type:
Article
The International Gene Trap Consortium Website: a portal to all publicly available gene trap cell lines in mouse.
Published in:
Nucleic Acids Research, 2006, v. 34, n. suppl 1, p. d642, doi. 10.1093/nar/gkj097
By:
- Nord, Alex S.;
- Chang, Patricia J.;
- Conklin, Bruce R.;
- Cox, Antony V.;
- Harper, Courtney A.;
- Hicks, Geoffrey G.;
- Huang, Conrad C.;
- Johns, Susan J.;
- Kawamoto, Michiko;
- Liu, Songyan;
- Meng, Elaine C.;
- Morris, John H.;
- Rossant, Janet;
- Ruiz, Patricia;
- Skarnes, William C.;
- Soriano, Philippe;
- Stanford, William L.;
- Stryke, Doug;
- von Melchner, Harald;
- Wurst, Wolfgang
Publication type:
Article
The Structure Superposition Database.
Published in:
Nucleic Acids Research, 2003, v. 31, n. 1, p. 505, doi. 10.1093/nar/gkg127
By:
- Chiang, Ranyee A.;
- Meng, Elaine C.;
- Huang, Conrad C.;
- Ferrin, Thomas E.;
- Babbitt, Patricia C.
Publication type:
Article
BayGenomics: a resource of insertional mutations in mouse embryonic stem cells.
Published in:
Nucleic Acids Research, 2003, v. 31, n. 1, p. 278, doi. 10.1093/nar/gkg064
By:
- Stryke, Doug;
- Kawamoto, Michiko;
- Huang, Conrad C.;
- Johns, Susan J.;
- King, Leslie A.;
- Harper, Courtney A.;
- Meng, Elaine C.;
- Lee, Roy E.;
- Yee, Alice;
- L'Italien, Larry;
- Chuang, Pao-Tien;
- Young, Stephen G.;
- Skarnes, William C.;
- Babbitt, Patricia C.;
- Ferrin, Thomas E.
Publication type:
Article
Orientational sampling and rigid-body minimization in molecular docking.
Published in:
Proteins, 1993, v. 17, n. 3, p. 266, doi. 10.1002/prot.340170305
By:
- Meng, Elaine C.;
- Gschwend, Daniel A.;
- Blaney, Jeffrey M.;
- Kuntz, Irwin D.
Publication type:
Article
Evolution of Function in the Two Dinucleotide Binding Domains Flavoproteins.
Published in:
PLoS Computational Biology, 2007, v. 3, n. 7, p. e121, doi. 10.1371/journal.pcbi.0030121
By:
- Ojha, Sunil;
- Meng, Elaine C.;
- Babbitt, Patricia C.
Publication type:
Article
Constitutive Activation and Endocytosis of the Complement Factor 5a Receptor: Evidence for Multiple Activated Conformations of a G Protein-Coupled Receptor.
Published in:
Traffic, 2002, v. 3, n. 12, p. 866, doi. 10.1034/j.1600-0854.2002.31203.x
By:
- Whistler, Jennifer L.;
- Gerber, Basil O.;
- Meng, Elaine C.;
- Baranski, Thomas J.;
- von Zastrow, Mark;
- Bourne, Henry R.
Publication type:
Article
Likelihood‐based interactive local docking into cryo‐EM maps in ChimeraX.
Published in:
Acta Crystallographica: Section D, Structural Biology, 2024, v. 80, n. 8, p. 588, doi. 10.1107/S2059798324006776
By:
- Read, Randy J.;
- Pettersen, Eric F.;
- McCoy, Airlie J.;
- Croll, Tristan I.;
- Terwilliger, Thomas C.;
- Poon, Billy K.;
- Meng, Elaine C.;
- Liebschner, Dorothee;
- Adams, Paul D.
Publication type:
Article
UCSF Chimera-A visualization system for exploratory research and analysis.
Published in:
Journal of Computational Chemistry, 2004, v. 25, n. 13, p. 1605, doi. 10.1002/jcc.20084
By:
- Pettersen, Eric F.;
- Goddard, Thomas D.;
- Huang, Conrad C.;
- Couch, Gregory S.;
- Greenblatt, Daniel M.;
- Meng, Elaine C.;
- Ferrin, Thomas E.
Publication type:
Article
Automated docking with grid-based energy evaluation.
Published in:
Journal of Computational Chemistry, 1992, v. 13, n. 4, p. 505, doi. 10.1002/jcc.540130412
By:
- Meng, Elaine C.;
- Shoichet, Brian K.;
- Kuntz, Irwin D.
Publication type:
Article
Determination of molecular topology and atomic hybridization states from heavy atom coordinates.
Published in:
Journal of Computational Chemistry, 1991, v. 12, n. 7, p. 891, doi. 10.1002/jcc.540120716
By:
- Meng, Elaine C.;
- Lewis, Richard A.
Publication type:
Article
UCSF ChimeraX: Tools for structure building and analysis.
Published in:
Protein Science: A Publication of the Protein Society, 2023, v. 32, n. 11, p. 1, doi. 10.1002/pro.4792
By:
- Meng, Elaine C.;
- Goddard, Thomas D.;
- Pettersen, Eric F.;
- Couch, Greg S.;
- Pearson, Zach J.;
- Morris, John H.;
- Ferrin, Thomas E.
Publication type:
Article
UCSF ChimeraX: Structure visualization for researchers, educators, and developers.
Published in:
Protein Science: A Publication of the Protein Society, 2021, v. 30, n. 1, p. 70, doi. 10.1002/pro.3943
By:
- Pettersen, Eric F.;
- Goddard, Thomas D.;
- Huang, Conrad C.;
- Meng, Elaine C.;
- Couch, Gregory S.;
- Croll, Tristan I.;
- Morris, John H.;
- Ferrin, Thomas E.
Publication type:
Article
UCSF ChimeraX: Meeting modern challenges in visualization and analysis.
Published in:
Protein Science: A Publication of the Protein Society, 2018, v. 27, n. 1, p. 14, doi. 10.1002/pro.3235
By:
- Goddard, Thomas D.;
- Huang, Conrad C.;
- Meng, Elaine C.;
- Pettersen, Eric F.;
- Couch, Gregory S.;
- Morris, John H.;
- Ferrin, Thomas E.
Publication type:
Article

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