David S. Goodsell

42 papers A 1B 1Journal 34Unranked 5
YearRankTypeTitle / Venue / Authors
2024 J jnl
Folding paper models of biostructures for outreach and education.
Patterns
David S. Goodsell, Shuchismita Dutta, Brian P. Hudson, Maria Voigt, Stephen K. Burley, Christine Zardecki
2023 J jnl
Changing Aesthetics in Biomolecular Graphics.
IEEE Computer Graphics and Applications
Laura A. Garrison, David S. Goodsell, Stefan Bruckner
2023 J jnl
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.
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
2022 J jnl
Integrative illustration of a JCVI-syn3A minimal cell.
J. Integr. Bioinform.
David S. Goodsell
2021 J jnl
CellPAINT: Turnkey Illustration of Molecular Cell Biology.
Frontiers Bioinform.
Adam Gardner, Ludovic Autin, Daniel Fuentes, Martina Maritan, Benjamin A. Barad, Michaela Medina, Arthur J. Olson, Danielle A. Grotjahn, David S. Goodsell
2021 J jnl
Modeling in the Time of COVID-19: Statistical and Rule-based Mesoscale Models.
IEEE Trans. Vis. Comput. Graph.
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
2021 J jnl
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.
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
2020 J jnl
Impact of the Protein Data Bank Across Scientific Disciplines.
Data Sci. J.
Zukang Feng, Natalie Verdiguel, Luigi Di Costanzo, David S. Goodsell, John D. Westbrook, Stephen K. Burley, Christine Zardecki
2020 — conf
Mesoscope: A Web-based Tool for Mesoscale Data Integration and Curation.
MolVa@Eurographics/EuroVis
Ludovic Autin, Martina Maritan, Brett A. Barbaro, Adam Gardner, Arthur J. Olson, Michel F. Sanner, David S. Goodsell
2019 J jnl
Cuttlefish: Color Mapping for Dynamic Multi-Scale Visualizations.
Comput. Graph. Forum
Nicholas Waldin, Manuela Waldner, Mathieu Le Muzic, M. Eduard Gröller, David S. Goodsell, Ludovic Autin, Arthur J. Olson, Ivan Viola
2019 J jnl
Integrative modeling of the HIV-1 ribonucleoprotein complex.
PLoS Comput. Biol.
David S. Goodsell, Andrew Jewett, Arthur J. Olson, Stefano Forli
2019 J jnl
Labels on Levels: Labeling of Multi-Scale Multi-Instance and Crowded 3D Biological Environments.
IEEE Trans. Vis. Comput. Graph.
David Kouril, Ladislav Cmolík, Barbora Kozlíková, Hsiang-Yun Wu, Graham Johnson, David S. Goodsell, Arthur J. Olson, M. Eduard Gröller, Ivan Viola
2019 J jnl
Parallel Generation and Visualization of Bacterial Genome Structures.
Comput. Graph. Forum
Tobias Klein, Peter Mindek, Ludovic Autin, David S. Goodsell, Arthur J. Olson, M. Eduard Gröller, Ivan Viola
2019 J jnl
RCSB Protein Data Bank: biological macromolecular structures enabling research and education in fundamental biology, biomedicine, biotechnology and energy.
Nucleic Acids Res.
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
2019 J jnl
Symmetry at the Cellular Mesoscale.
Symmetry
David S. Goodsell
2018 J jnl
CellPAINT: Interactive Illustration of Dynamic Mesoscale Cellular Environments.
IEEE Computer Graphics and Applications
Adam Gardner, Ludovic Autin, Brett Barbaro, Arthur J. Olson, David S. Goodsell
2018 J jnl
Instant Construction and Visualization of Crowded Biological Environments.
IEEE Trans. Vis. Comput. Graph.
Tobias Klein, Ludovic Autin, Barbora Kozlíková, David S. Goodsell, Arthur J. Olson, M. Eduard Gröller, Ivan Viola
2017 J jnl
The RCSB protein data bank: integrative view of protein, gene and 3D structural information.
Nucleic Acids Res.
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
2016 — conf
Chameleon - Dynamic Color Mapping for Multi-Scale Structural Biology Models.
VCBM/MedViz
Nicholas Waldin, Mathieu Le Muzic, Manuela Waldner, M. Eduard Gröller, David S. Goodsell, Ludovic Autin, Ivan Viola
2016 J jnl
Fragment-Based Analysis of Ligand Dockings Improves Classification of Actives.
J. Chem. Inf. Model.
Richard K. Belew, Stefano Forli, David S. Goodsell, T. J. O'Donnell, Arthur J. Olson
2016 J jnl
Visibility Equalizer Cutaway Visualization of Mesoscopic Biological Models.
Comput. Graph. Forum
Mathieu Le Muzic, Peter Mindek, Johannes Sorger, Ludovic Autin, David S. Goodsell, Ivan Viola
2015 J jnl
The RCSB Protein Data Bank: views of structural biology for basic and applied research and education.
Nucleic Acids Res.
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
2013 J jnl
The RCSB Protein Data Bank: new resources for research and education.
Nucleic Acids Res.
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
2012 J jnl
Protein Flexibility in Virtual Screening: The BACE-1 Case Study.
J. Chem. Inf. Model.
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
2011 J jnl
The RCSB Protein Data Bank: redesigned web site and web services.
Nucleic Acids Res.
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
2009 J jnl
AutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility.
J. Comput. Chem.
Garrett M. Morris, Ruth Huey, William Lindstrom, Michel F. Sanner, Richard K. Belew, David S. Goodsell, Arthur J. Olson
2008 J jnl
Empirical entropic contributions in computational docking: Evaluation in APS reductase complexes.
J. Comput. Chem.
Max W. Chang, Richard K. Belew, Kate S. Carroll, Arthur J. Olson, David S. Goodsell
2007 J jnl
A semiempirical free energy force field with charge-based desolvation.
J. Comput. Chem.
Ruth Huey, Garrett M. Morris, Arthur J. Olson, David S. Goodsell
2004 A conf
Augmented Reality with Tangible Auto-Fabricated Models for Molecular Biology Applications.
IEEE Visualization
Alexandre Gillet, Michel F. Sanner, Daniel Stoffler, David S. Goodsell, Arthur J. Olson
2004 — conf
Computer-linked autofabricated 3D models for teaching structural biology.
SIGGRAPH Sketches
Alexandre Gillet, Suzanne Weghorst, William Winn, Daniel Stoffler, Michel F. Sanner, David S. Goodsell, Arthur J. Olson
2003 J jnl
Automated docking of ligands to an artificial active site: augmenting crystallographic analysis with computer modeling.
J. Comput. Aided Mol. Des.
Robin J. Rosenfeld, David S. Goodsell, Rabi A. Musah, Garrett M. Morris, David B. Goodin, Arthur J. Olson
2003 J jnl
BioEditor - Simplifying Macromolecular Structure Annotation.
Bioinform.
Peng Yang, Paul A. Craig, David S. Goodsell, Philip E. Bourne
1999 — ch.
Atomistic vs. Continuous Representations in Molecular Biology.
Visual Representations and Interpretations
David S. Goodsell
1999 — conf
Modeling HIV.
SIGGRAPH Abstracts and Applications
Teresa Larsen, David S. Goodsell, Dru Clark, Ernest Stewart
1998 J jnl
An Analysis of a Class of DNA Sequence Reading Molecules.
J. Comput. Biol.
Wynn L. Walker, David S. Goodsell, Elliot M. Landaw
1998 J jnl
Automated docking using a Lamarckian genetic algorithm and an empirical binding free energy function.
J. Comput. Chem.
Garrett M. Morris, David S. Goodsell, Robert S. Halliday, Ruth Huey, William E. Hart, Richard K. Belew, Arthur J. Olson
1998 J jnl
Computational Coevolution of Antiviral Drug Resistance.
Artif. Life
Christopher D. Rosin, Richard K. Belew, Garrett M. Morris, Arthur J. Olson, David S. Goodsell
1998 J jnl
Design of stapled DNA-minor-groove-binding molecules with a mutable atom simulated annealing method.
J. Comput. Aided Mol. Des.
Wynn L. Walker, Mary L. Kopka, Richard E. Dickerson, David S. Goodsell
1998 B conf
The theoretical limits of DNA sequence discrimination of polyamides.
RECOMB
Wynn L. Walker, David S. Goodsell, Elliot M. Landaw
1997 J jnl
Design of stapled DNA-minor-groove-binding molecules with a mutable atom simulated annealing method.
J. Comput. Aided Mol. Des.
Wynn L. Walker, Mary L. Kopka, Richard E. Dickerson, David S. Goodsell
1996 J jnl
Distributed automated docking of flexible ligands to proteins: Parallel applications of AutoDock 2.4.
J. Comput. Aided Mol. Des.
Garrett M. Morris, David S. Goodsell, Ruth Huey, Arthur J. Olson
1989 — conf
Molecular applications of volume rendering and 3-D texture maps.
VVS
David S. Goodsell, Arthur J. Olson