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ORCIDDavid S. Goodsell
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- affiliation: Scripps Research Institute, La Jolla, CA, USA
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2020 – today
- 2024
[j35]David S. Goodsell, Shuchismita Dutta, Brian P. Hudson, Maria Voigt, Stephen K. Burley, Christine Zardecki
:
Folding paper models of biostructures for outreach and education. Patterns 5(2): 100931 (2024)- 2023
- [j34]Laura A. Garrison, David S. Goodsell, Stefan Bruckner:
Changing Aesthetics in Biomolecular Graphics. IEEE Computer Graphics and Applications 43(3): 94-101 (2023) - [j33]Stephen K. Burley, Charmi Bhikadiya, Chunxiao Bi, Sebastian Bittrich, Henry Chao, Li Chen, Paul A. Craig, Gregg V. Crichlow, Kenneth Dalenberg, Jose M. Duarte, Shuchismita Dutta, Maryam Fayazi, Zukang Feng, Justin W. Flatt, Sai Ganesan, Sutapa Ghosh, David S. Goodsell, Rachel Kramer Green, Vladimir Guranovic, Jeremy Henry, Brian P. Hudson, Igor Khokhriakov, Catherine L. Lawson, Yuhe Liang, Robert Lowe, Ezra Peisach, Irina Persikova, Dennis W. Piehl, Yana Rose, Andrej Sali, Joan Segura, Monica Sekharan, Chenghua Shao, Brinda Vallat, Maria Voigt, Ben M. Webb, John D. Westbrook, Shamara Whetstone, Jasmine Young, Arthur O. Zalevsky, Christine Zardecki:
RCSB Protein Data Bank (RCSB.org): delivery of experimentally-determined PDB structures alongside one million computed structure models of proteins from artificial intelligence/machine learning. Nucleic Acids Res. 51(D1): 488-508 (2023) - 2022
- [j32]David S. Goodsell:
Integrative illustration of a JCVI-syn3A minimal cell. J. Integr. Bioinform. 19(2) (2022) - 2021
- [j31]Adam Gardner, Ludovic Autin, Daniel Fuentes, Martina Maritan, Benjamin A. Barad, Michaela Medina, Arthur J. Olson, Danielle A. Grotjahn, David S. Goodsell:
CellPAINT: Turnkey Illustration of Molecular Cell Biology. Frontiers Bioinform. 1 (2021) - [j30]Stephen K. Burley, Charmi Bhikadiya, Chunxiao Bi, Sebastian Bittrich, Li Chen, Gregg V. Crichlow, Cole H. Christie, Kenneth Dalenberg, Luigi Di Costanzo, Jose M. Duarte, Shuchismita Dutta, Zukang Feng, Sai Ganesan, David S. Goodsell, Sutapa Ghosh, Rachel Kramer Green, Vladimir Guranovic, Dmytro Guzenko, Brian P. Hudson, Catherine L. Lawson, Yuhe Liang, Robert Lowe, Harry Namkoong, Ezra Peisach, Irina Persikova, Christopher Randle, Alexander S. Rose, Yana Rose, Andrej Sali, Joan Segura, Monica Sekharan, Chenghua Shao, Yi-Ping Tao, Maria Voigt, John D. Westbrook, Jasmine Young, Christine Zardecki, Marina Zhuravleva:
RCSB Protein Data Bank: powerful new tools for exploring 3D structures of biological macromolecules for basic and applied research and education in fundamental biology, biomedicine, biotechnology, bioengineering and energy sciences. Nucleic Acids Res. 49(Database-Issue): D437-D451 (2021) - [j29]Ngan V. T. Nguyen, Ondrej Strnad, Tobias Klein, Deng Luo, Ruwayda Alharbi, Peter Wonka, Martina Maritan, Peter Mindek, Ludovic Autin, David S. Goodsell, Ivan Viola:
Modeling in the Time of COVID-19: Statistical and Rule-based Mesoscale Models. IEEE Trans. Vis. Comput. Graph. 27(2): 722-732 (2021) - 2020
- [j28]Zukang Feng, Natalie Verdiguel, Luigi Di Costanzo, David S. Goodsell, John D. Westbrook, Stephen K. Burley, Christine Zardecki:
Impact of the Protein Data Bank Across Scientific Disciplines. Data Sci. J. 19: 25 (2020) - [c7]Ludovic Autin, Martina Maritan, Brett A. Barbaro, Adam Gardner, Arthur J. Olson, Michel F. Sanner, David S. Goodsell:
Mesoscope: A Web-based Tool for Mesoscale Data Integration and Curation. MolVa@Eurographics/EuroVis 2020: 23-31
2010 – 2019
- 2019
- [j27]Nicholas Waldin, Manuela Waldner, Mathieu Le Muzic, M. Eduard Gröller, David S. Goodsell, Ludovic Autin, Arthur J. Olson, Ivan Viola:
Cuttlefish: Color Mapping for Dynamic Multi-Scale Visualizations. Comput. Graph. Forum 38(6): 150-164 (2019) - [j26]Tobias Klein, Peter Mindek, Ludovic Autin, David S. Goodsell, Arthur J. Olson, M. Eduard Gröller, Ivan Viola:
Parallel Generation and Visualization of Bacterial Genome Structures. Comput. Graph. Forum 38(7): 57-68 (2019) - [j25]Stephen K. Burley, Helen M. Berman, Charmi Bhikadiya, Chunxiao Bi, Li Chen, Luigi Di Costanzo, Cole H. Christie, Kenneth Dalenberg, Jose M. Duarte, Shuchismita Dutta, Zukang Feng, Sutapa Ghosh, David S. Goodsell, Rachel Kramer Green, Vladimir Guranovic, Dmytro Guzenko, Brian P. Hudson, Tara Kalro, Yuhe Liang, Robert Lowe, Harry Namkoong, Ezra Peisach, Irina Periskova, Andreas Prlic, Christopher Randle, Alexander S. Rose, Peter W. Rose, Raul Sala, Monica Sekharan, Chenghua Shao, Lihua Tan, Yi-Ping Tao, Yana Valasatava, Maria Voigt, John D. Westbrook, Jesse Woo, Huanwang Yang, Jasmine Young, Marina Zhuravleva, Christine Zardecki:
RCSB Protein Data Bank: biological macromolecular structures enabling research and education in fundamental biology, biomedicine, biotechnology and energy. Nucleic Acids Res. 47(Database-Issue): D464-D474 (2019) - [j24]David S. Goodsell, Andrew Jewett, Arthur J. Olson, Stefano Forli:
Integrative modeling of the HIV-1 ribonucleoprotein complex. PLoS Comput. Biol. 15(6) (2019) - [j23]David S. Goodsell:
Symmetry at the Cellular Mesoscale. Symmetry 11(9): 1170 (2019) - [j22]David Kouril, Ladislav Cmolík, Barbora Kozlíková, Hsiang-Yun Wu, Graham Johnson, David S. Goodsell, Arthur J. Olson, M. Eduard Gröller, Ivan Viola:
Labels on Levels: Labeling of Multi-Scale Multi-Instance and Crowded 3D Biological Environments. IEEE Trans. Vis. Comput. Graph. 25(1): 977-986 (2019) - 2018
- [j21]Adam Gardner, Ludovic Autin, Brett Barbaro, Arthur J. Olson, David S. Goodsell:
CellPAINT: Interactive Illustration of Dynamic Mesoscale Cellular Environments. IEEE Computer Graphics and Applications 38(6): 51-66 (2018) - [j20]Tobias Klein, Ludovic Autin, Barbora Kozlíková, David S. Goodsell, Arthur J. Olson, M. Eduard Gröller, Ivan Viola:
Instant Construction and Visualization of Crowded Biological Environments. IEEE Trans. Vis. Comput. Graph. 24(1): 862-872 (2018) - 2017
- [j19]Peter W. Rose, Andreas Prlic, Ali Altunkaya, Chunxiao Bi, Anthony R. Bradley, Cole H. Christie, Luigi Di Costanzo, Jose M. Duarte, Shuchismita Dutta, Zukang Feng, Rachel Kramer Green, David S. Goodsell, Brian P. Hudson, Tara Kalro, Robert Lowe, Ezra Peisach, Christopher Randle, Alexander S. Rose, Chenghua Shao, Yi-Ping Tao, Yana Valasatava, Maria Voigt, John D. Westbrook, Jesse Woo, Huanwang Yang, Jasmine Young, Christine Zardecki, Helen M. Berman, Stephen K. Burley:
The RCSB protein data bank: integrative view of protein, gene and 3D structural information. Nucleic Acids Res. 45(Database-Issue): D271-D281 (2017) - 2016
- [j18]Mathieu Le Muzic, Peter Mindek, Johannes Sorger, Ludovic Autin, David S. Goodsell, Ivan Viola:
Visibility Equalizer Cutaway Visualization of Mesoscopic Biological Models. Comput. Graph. Forum 35(3): 161-170 (2016) - [j17]Richard K. Belew, Stefano Forli, David S. Goodsell, T. J. O'Donnell, Arthur J. Olson:
Fragment-Based Analysis of Ligand Dockings Improves Classification of Actives. J. Chem. Inf. Model. 56(8): 1597-1607 (2016) - [c6]Nicholas Waldin, Mathieu Le Muzic, Manuela Waldner, M. Eduard Gröller, David S. Goodsell, Ludovic Autin, Ivan Viola:
Chameleon - Dynamic Color Mapping for Multi-Scale Structural Biology Models. VCBM/MedViz 2016: 11-20 - 2015
- [j16]Peter W. Rose, Andreas Prlic, Chunxiao Bi, Wolfgang Bluhm, Cole H. Christie, Shuchismita Dutta, Rachel Kramer Green, David S. Goodsell, John D. Westbrook, Jesse Woo, Jasmine Young, Christine Zardecki, Helen M. Berman, Philip E. Bourne, Stephen K. Burley:
The RCSB Protein Data Bank: views of structural biology for basic and applied research and education. Nucleic Acids Res. 43(Database-Issue): 345-356 (2015) - [j15]Pradeep Anand Ravindranath, Stefano Forli, David S. Goodsell, Arthur J. Olson, Michel F. Sanner:
AutoDockFR: Advances in Protein-Ligand Docking with Explicitly Specified Binding Site Flexibility. PLoS Comput. Biol. 11(12) (2015) - 2013
- [j14]Peter W. Rose, Chunxiao Bi, Wolfgang Bluhm, Cole H. Christie, Dimitris Dimitropoulos, Shuchismita Dutta, Rachel Kramer Green, David S. Goodsell, Andreas Prlic, Martha Quesada, Greg B. Quinn, Alexander G. Ramos, John D. Westbrook, Jasmine Young, Christine Zardecki, Helen M. Berman, Philip E. Bourne:
The RCSB Protein Data Bank: new resources for research and education. Nucleic Acids Res. 41(Database-Issue): 475-482 (2013) - 2012
- [j13]Sandro Cosconati, Luciana Marinelli, Francesco Saverio Di Leva, Valeria La Pietra, Angela De Simone, Francesca Mancini, Vincenza Andrisano, Ettore Novellino, David S. Goodsell, Arthur J. Olson:
Protein Flexibility in Virtual Screening: The BACE-1 Case Study. J. Chem. Inf. Model. 52(10): 2697-2704 (2012) - 2011
- [j12]Peter W. Rose, Bojan Beran, Chunxiao Bi, Wolfgang Bluhm, Dimitris Dimitropoulos, David S. Goodsell, Andreas Prlic, Martha Quesada, Greg B. Quinn, John D. Westbrook, Jasmine Young, Benjamin T. Yukich, Christine Zardecki, Helen M. Berman, Philip E. Bourne:
The RCSB Protein Data Bank: redesigned web site and web services. Nucleic Acids Res. 39(Database-Issue): 392-401 (2011)
2000 – 2009
- 2009
- [j11]Garrett M. Morris, Ruth Huey, William Lindstrom, Michel F. Sanner, Richard K. Belew, David S. Goodsell, Arthur J. Olson:
AutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility. J. Comput. Chem. 30(16): 2785-2791 (2009) - 2008
- [j10]Max W. Chang, Richard K. Belew, Kate S. Carroll, Arthur J. Olson, David S. Goodsell:
Empirical entropic contributions in computational docking: Evaluation in APS reductase complexes. J. Comput. Chem. 29(11): 1753-1761 (2008) - 2007
- [j9]Ruth Huey, Garrett M. Morris, Arthur J. Olson, David S. Goodsell:
A semiempirical free energy force field with charge-based desolvation. J. Comput. Chem. 28(6): 1145-1152 (2007) - 2004
- [c5]Alexandre Gillet, Suzanne Weghorst, William Winn, Daniel Stoffler, Michel F. Sanner, David S. Goodsell, Arthur J. Olson:
Computer-linked autofabricated 3D models for teaching structural biology. SIGGRAPH Sketches 2004: 28 - [c4]Alexandre Gillet, Michel F. Sanner, Daniel Stoffler, David S. Goodsell, Arthur J. Olson:
Augmented Reality with Tangible Auto-Fabricated Models for Molecular Biology Applications. IEEE Visualization 2004: 235-242 - 2003
- [j8]Peng Yang, Paul A. Craig, David S. Goodsell, Philip E. Bourne:
BioEditor - Simplifying Macromolecular Structure Annotation. Bioinform. 19(7): 897-898 (2003) - [j7]Robin J. Rosenfeld, David S. Goodsell, Rabi A. Musah, Garrett M. Morris, David B. Goodin, Arthur J. Olson:
Automated docking of ligands to an artificial active site: augmenting crystallographic analysis with computer modeling. J. Comput. Aided Mol. Des. 17(8): 525-536 (2003)
1990 – 1999
- 1999
- [c3]Teresa Larsen, David S. Goodsell, Dru Clark, Ernest Stewart:
Modeling HIV. SIGGRAPH Abstracts and Applications 1999: 256 - [p1]David S. Goodsell:
Atomistic vs. Continuous Representations in Molecular Biology. Visual Representations and Interpretations 1999: 146-155 - 1998
- [j6]Christopher D. Rosin, Richard K. Belew, Garrett M. Morris, Arthur J. Olson, David S. Goodsell:
Computational Coevolution of Antiviral Drug Resistance. Artif. Life 4(1): 41-59 (1998) - [j5]Wynn L. Walker, Mary L. Kopka, Richard E. Dickerson, David S. Goodsell:
Design of stapled DNA-minor-groove-binding molecules with a mutable atom simulated annealing method. J. Comput. Aided Mol. Des. 12(6): 539-546 (1998) - [j4]Wynn L. Walker, David S. Goodsell, Elliot M. Landaw:
An Analysis of a Class of DNA Sequence Reading Molecules. J. Comput. Biol. 5(3): 571-583 (1998) - [j3]Garrett M. Morris, David S. Goodsell, Robert S. Halliday, Ruth Huey, William E. Hart, Richard K. Belew, Arthur J. Olson:
Automated docking using a Lamarckian genetic algorithm and an empirical binding free energy function. J. Comput. Chem. 19(14): 1639-1662 (1998) - [c2]Wynn L. Walker, David S. Goodsell, Elliot M. Landaw:
The theoretical limits of DNA sequence discrimination of polyamides. RECOMB 1998: 270-275 - 1997
- [j2]Wynn L. Walker, Mary L. Kopka, Richard E. Dickerson, David S. Goodsell:
Design of stapled DNA-minor-groove-binding molecules with a mutable atom simulated annealing method. J. Comput. Aided Mol. Des. 11(6): 539-546 (1997) - 1996
- [j1]Garrett M. Morris, David S. Goodsell, Ruth Huey, Arthur J. Olson:
Distributed automated docking of flexible ligands to proteins: Parallel applications of AutoDock 2.4. J. Comput. Aided Mol. Des. 10(4): 293-304 (1996)
1980 – 1989
- 1989
- [c1]David S. Goodsell, Arthur J. Olson:
Molecular applications of volume rendering and 3-D texture maps. VVS 1989: 27-31
Coauthor Index
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