David S. Goodsell

Orcid: 0000-0002-5932-2130

Affiliations:
  • Scripps Research Institute, La Jolla, CA, USA


According to our database1, David S. Goodsell authored at least 42 papers between 1989 and 2024.

Collaborative distances:
  • Dijkstra number2 of four.
  • Erdős number3 of four.

Timeline

Legend:

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Online presence:

On csauthors.net:

Bibliography

2024
Folding paper models of biostructures for outreach and education.
Patterns, 2024

2023
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., January, 2023

Changing Aesthetics in Biomolecular Graphics.
IEEE Computer Graphics and Applications, 2023

2022
Integrative illustration of a JCVI-syn3A minimal cell.
J. Integr. Bioinform., 2022

2021
Modeling in the Time of COVID-19: Statistical and Rule-based Mesoscale Models.
IEEE Trans. Vis. Comput. Graph., 2021

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., 2021

CellPAINT: Turnkey Illustration of Molecular Cell Biology.
Frontiers Bioinform., 2021

2020
Impact of the Protein Data Bank Across Scientific Disciplines.
Data Sci. J., 2020

Mesoscope: A Web-based Tool for Mesoscale Data Integration and Curation.
Proceedings of the 3rd Workshop on Molecular Graphics and Visual Analysis of Molecular Data, 2020

2019
Labels on Levels: Labeling of Multi-Scale Multi-Instance and Crowded 3D Biological Environments.
IEEE Trans. Vis. Comput. Graph., 2019

Symmetry at the Cellular Mesoscale.
Symmetry, 2019

Integrative modeling of the HIV-1 ribonucleoprotein complex.
PLoS Comput. Biol., 2019

RCSB Protein Data Bank: biological macromolecular structures enabling research and education in fundamental biology, biomedicine, biotechnology and energy.
Nucleic Acids Res., 2019

Cuttlefish: Color Mapping for Dynamic Multi-Scale Visualizations.
Comput. Graph. Forum, 2019

Parallel Generation and Visualization of Bacterial Genome Structures.
Comput. Graph. Forum, 2019

2018
Instant Construction and Visualization of Crowded Biological Environments.
IEEE Trans. Vis. Comput. Graph., 2018

CellPAINT: Interactive Illustration of Dynamic Mesoscale Cellular Environments.
IEEE Computer Graphics and Applications, 2018

2017
The RCSB protein data bank: integrative view of protein, gene and 3D structural information.
Nucleic Acids Res., 2017

2016
Fragment-Based Analysis of Ligand Dockings Improves Classification of Actives.
J. Chem. Inf. Model., 2016

Visibility Equalizer Cutaway Visualization of Mesoscopic Biological Models.
Comput. Graph. Forum, 2016

Chameleon - Dynamic Color Mapping for Multi-Scale Structural Biology Models.
Proceedings of the 6th Eurographics Workshop on Visual Computing for Biology and Medicine, 2016

2015
<i>AutoDockFR</i>: Advances in Protein-Ligand Docking with Explicitly Specified Binding Site Flexibility.
PLoS Comput. Biol., 2015

The RCSB Protein Data Bank: views of structural biology for basic and applied research and education.
Nucleic Acids Res., 2015

2013
The RCSB Protein Data Bank: new resources for research and education.
Nucleic Acids Res., 2013

2012
Protein Flexibility in Virtual Screening: The BACE-1 Case Study.
J. Chem. Inf. Model., 2012

2011
The RCSB Protein Data Bank: redesigned web site and web services.
Nucleic Acids Res., 2011

2009
AutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility.
J. Comput. Chem., 2009

2008
Empirical entropic contributions in computational docking: Evaluation in APS reductase complexes.
J. Comput. Chem., 2008

2007
A semiempirical free energy force field with charge-based desolvation.
J. Comput. Chem., 2007

2004
Augmented Reality with Tangible Auto-Fabricated Models for Molecular Biology Applications.
Proceedings of the 15th IEEE Visualization Conference, 2004

Computer-linked autofabricated 3D models for teaching structural biology.
Proceedings of the International Conference on Computer Graphics and Interactive Techniques, 2004

2003
Automated docking of ligands to an artificial active site: augmenting crystallographic analysis with computer modeling.
J. Comput. Aided Mol. Des., 2003

BioEditor - Simplifying Macromolecular Structure Annotation.
Bioinform., 2003

1999
Modeling HIV.
Proceedings of the 26th Annual Conference on Computer Graphics and Interactive Techniques, 1999

Atomistic vs. Continuous Representations in Molecular Biology.
Proceedings of the Visual Representations and Interpretations, 1999

1998
Automated docking using a Lamarckian genetic algorithm and an empirical binding free energy function.
J. Comput. Chem., 1998

An Analysis of a Class of DNA Sequence Reading Molecules.
J. Comput. Biol., 1998

Computational Coevolution of Antiviral Drug Resistance.
Artif. Life, 1998

The theoretical limits of DNA sequence discrimination of polyamides.
Proceedings of the Second Annual International Conference on Research in Computational Molecular Biology, 1998

1997
Design of stapled DNA-minor-groove-binding molecules with a mutable atom simulated annealing method.
J. Comput. Aided Mol. Des., 1997

1996
Distributed automated docking of flexible ligands to proteins: Parallel applications of AutoDock 2.4.
J. Comput. Aided Mol. Des., 1996

1989
Molecular applications of volume rendering and 3-D texture maps.
Proceedings of the 1989 Chapel Hill Workshop on Volume Visualization, 1989


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