Curriculum vitae

David S. Goodsell

 

Personal Statement

I currently hold a dual appointment as Associate Professor of Molecular Biology at the Scripps Research Institute and Research Professor at Rutgers State University. I divide my time between research and science outreach. My research centers on methods for predicting and analyzing biomolecular complexes, and application of these methods to drug discovery, drug design, and protein function prediction. Current work includes development of AutoDock, the most widely-used computational docking program in the scientific community, and application to HIV drug resistance. In my science outreach work, I have developed new visual methods for exploring molecular and cellular structure. This includes two decades of work on depiction of the cellular mesoscale, and development of non-photorealistic rendering methods for molecular and cellular subjects. I currently author a monthly column at the RCSB Protein Data Bank that presents molecular structure and function for general audiences, and I have written three general-interest books on molecular biology, cell biology and bionanotechnology. I have also collaborated with science museums, filmmakers, educators and popular authors on the creation of educational and outreach materials.

 

Education

University of California at Irvine, B.S. in Chemistry, 1982.

University of California at Irvine, B.S. in Biology, 1982.

University of California at Los Angeles, Ph.D. in Biochemistry, 1987.

 

Professional Experience

Research and Teaching Assistant, Department of Chemistry and Biochemistry, University of California at Los Angeles, 1982-1987. Graduate Advisor: Richard E. Dickerson.

Research Associate, Department of Molecular Biology, Research Institute of Scripps Clinic, 1987-1990. Postdoctoral Advisor: Arthur J. Olson.

Scientific Associate, Department of Molecular Biology, Research Institute of Scripps Clinic, 1990-1992. Postdoctoral Advisor: Arthur J. Olson.

Assistant Researcher, Molecular Biology Institute, University of California at Los Angeles, 1992-1994. Research Director: Richard E. Dickerson.

Assistant Professor, Department of Molecular Biology, The Scripps Research Institute, 1994-2001.

Associate Professor, Department of Molecular Biology, The Scripps Research Institute, 2001-2006.

Associate Professor of Molecular Biology, Department of Molecular Biology, The Scripps Research Institute, 2006-2013.

Associate Professor of Molecular Biology, Department of Integrative Structural and Computational Biology, The Scripps Research Institute, 2013-present.

Research Professor, Center for Integrative Proteomics Research, Rutgers State University of New Jersey, 2016-present.

 

Awards and Honors

Distinguished Teaching Award -- Department of Chemistry and Biochemistry, University of California at Los Angeles, 1983.

Vesalius Trust Frank Netter Award for Special Contributions to Health Science Education, 1999, for "The Machinery of Life."

Association of Medical Illustrators Literary Award, 2000, for "Illustrating the Machinery of Life."

Best Wide Age Appeal Award, SIGKIDS at SIGGRAPH, 2003, for "Chemystery."

Science and Engineering Visualization Challenge, 2003, National Science Foundation, Second Place in Illustration, for "Macrophage and Bacterium, 2,000,000X." See Science 301, pg. 1477, 2003.

Art in Crystallography Prize, 2005, American Crystallographic Association, First Place, for "Blood 2,000,000X."

Overall Winner, 2016, Wellcome Image Awards, for "Ebola Virus 2,000,000X".

 

Sources of Support

Predoctoral Trainee, USPHS National Research Service Award GM-07104, 1983-1985.

Postdoctoral Fellow, Damon Runyon-Walter Winchell Cancer Research Fund Fellow DRG 972, 1988-1990.

Co-principal Investigator, "From Atoms to Cells: Multiscale Computational Integration of Sequence, Structure and Assembly." Department of Energy, Office of Energy Research, DE-FG03-96EK62272 (Olson PI), 1996-2000.

Co-principal Investigator, "Drug Design Cycle Targeted to Retroviral Protease." National Institute of General Medical Sciences, National Institutes of Health, 2P01 GM48870 (Olson PI), 1997-2007.

Principal Investigator, "A Database of General Biomolecular Information for Education." National Science Foundation, DBI-9904796, 1999-2002.

Co-Principal Investigator, "Tangible Interfaces for Research in Molecular Biology." National Institutes of Health, R33 EB00798 (Olson PI), 2001-2005.

Co-principal Investigator, "Computer-linked Auto-fabricated Models for Education in Molecular Biology." National Science Foundation, EIA 0121282 (Olson PI), 2001-2005.

Co-principal Investigator, "A Computational Docking Resource for Cancer Research." National Institutes of Health, R24 CA95830 (Olson PI), 2002-2007.

Consultant, "Macromolecular Structure Database." National Science Foundation, DBI 03-12718 (Berman PI), 2005-2008.

Consortium Principal Investigator, "Using Physical Models to Enhance Biomolecular Education." National Science Foundation, DUE-0442409 (Herman PI), 2005-2006.

Co-principal Investigator, "Active Learning Modules for the Molecular Biosciences." National Science Foundation, DUE-0618668 (Herman PI), 2006-2009.

Co-principal Investigator, "Resistance Driven Structural Design for HIV Therapies." National Institute of General Medical Sciences, P01 GM083658-04 (Olson PI), 2008-2012.

Consultant, "Connecting Research Labs and Classrooms: A Role for Physical Modeling Projects in the Undergraduate Curriculum." National Science Foundation, DUE-1022793 (Herman PI), 2010-2013.

Co-principal Investigator, "An Interdisciplinary Approach to Biological Energy Transfer – Cross-Institutional Collaboration and Adaptation." National Science Foundation, DUE-1044898 (Batiza PI), 2011-2014.

Principal Investigator, "The Protein Structure Initiative Knowledgebase." National Institutes of General Medical Sciences, U01 GM093324-02, Sub-project ID 5910, 2011-2012.

 

Current:

Co-principal Investigator, "AutoDock Software Development and Maintenance." National Institute of General Medical Sciences, National Institutes of Health, RO1 GM069832 (Olson PI), 2004-2017.

Consultant, "PDB Management by the Research Collaboratory for Structural Bioinformatics." National Science Foundation, DBI 08-29586 (Berman PI), 2009-2016.

Co-investigator, "HIV Macromolecular Interactions and Impact on Viral Evolution of Drug Resistance." National Institutes of Health, 1P51 GM103368-01 (Olson, PI), 2012-2017.

 

Professional Activities

Panels and Boards

Special Emphasis Panel, Centers of Biomedical Research Excellence, National Center for Research Resources, June 18-20, 2000.

Workshop on "Application of Structural Biology in Cancer Biology," National Cancer Institute, December 11-12, 2000.

Vesalius Trust Board, 2002-2006.

National Nanotechnology Initiative Grand Challenge Workshop Series: Nanotechnology in Space Exploration, NASA, August 24-26, 2004.

Workshop on "Unlocking the Protein Data Bank," Vivid Ideas, Museum of Contemporary Art, Sydney, May 30, 2014.

 

Selected Speaking Engagements

Keynote Speaker, "Molecular Graphics: Making Biology Accessible." Computational Chemistry Conference, C S U Fullerton, California, January 1994.

Opening Speaker, "Illustration of Macromolecular Size, Shape & Distribution." Gordon Research Conference on Enzyme Organization and Cell Function, Oxnard, California, January 1995.

Tutorial, "Bio-Nanotechnology: Lessons from Nature." 7th Foresight Conference on Molecular Nanotechnology, Santa Clara, California, October 1999.

Plenary Speaker, "Illustrating the Machinery of Life." Association of Medical Illustrators Annual Conference (BioComm 2000), Rochester, Minnesota, July 2000.

Samson Feldman Visiting Scholar in Art as Applied to Medicine, "Art as Applied to Molecular Medicine." The Johns Hopkins University, School of Medicine, Baltimore, April 2002.

Invited Speaker, "Exploring the PDB." Symposium on "The Protein Data Bank in the Classroom and Beyond," ASBMB Annual Meeting, April 2005.

Plenary Speaker, "Visual Methods from Atoms to Cells." M2Cell Workshop, Scientific Foundation Fourmentin-Guilbert, Royal Abbey of Fontevraud, France, December 2005.

Session X Speaker on the Frontiers of Materials Research, "Visual Methods at the Nanoscale." Materials Research Society Spring Meeting, San Francisco, April 2006.

Invited Speaker, "Visual Representation from Atoms to Cells: New Work from the Machinery of Life." Symposium "Have you ever seen a molecule? Art, science and visual communication," CRASSH, Cambridge, March 2010.

Plenary Speaker, "Modeling the Complexity of Life from Atoms to Cells." St. Olaf Science Symposium, St. Olaf College, Minnesota, May 2010.

Keynote Speaker, "Communicating Biology: Inspirations and Applications." VIZBI 2012, EMBL, Germany, March 2012.

Invited Lecturer with Student Workshop, "Visual Methods from Atoms to Cells." Course on "Analogous Thinking in the Arts and Sciences," University of Florida, March 2012.

Invited Speaker, "Depicting Cellular Environments: Preparation and Process." SCIVIZ, Medical Museion and Aarhus University, Copenhagen, September 2012.

Invited Speaker, "Visualizing the Molecular Structure of Cellular Environments." Symposium on "Toward the 3D Virtual Cell," University of California, San Diego, December 2012.

Invited Speaker, "Nature's Nanotech: Exploring Biomolecular Structure and Function at the Protein Data Bank." Singularity University, Moffett Field, California, June 2013.

Keynote Speaker, "Illustrating the Machinery of Life." Biocommunication Academic Meeting, University of Toronto, April 2014.

Signature Speaker, "On Making Science Beautiful." Vivid Ideas, Museum of Contemporary Art, Sydney, May 29, 2014.

Keynote Speaker, "Illustrating the Molecular Anatomy of the Cell." American Association of Anatomists, Medical College of Wisconsin, October 3, 2015.

 

Editorial and Curatorial Service

Curator, Molecular Graphics Art Show, Mary and Leigh Block Gallery, Northwestern University, Chicago. July 7-14, 1994. Held in association with the 13th annual meeting of the Molecular Graphics Society. Catalogue available at http://www.scripps.edu/pub/goodsell/mgs_art.

Curator, Second Molecular Graphics Art Show, Fleet Space Theatre and Science Center, San Diego, California. December 1, 1998 to January 15, 1999. Held in association with the 17th annual meeting of the Molecular Graphics and Modeling Society. Catalogue available at http://www.scripps.edu/pub/goodsell/mgs_art.

Editor, Section on Cancer Biology, The Oncologist, Alpha Med Press, Miamisburg, Ohio, 2002-2007.

Editorial Advisory Board, Letters in Drug Design and Discovery, Bentham Science Publishers, 2003-2006.

Editor, "The Future of HIV-1 Therapeutics: Resistance is Futile?" Curr. Top. Microbiol. Immunol. 389, 2015.

 

Consultation

Artistic and Scientific Consultant, Walk-through-cell exhibit. Hall of Exploration, Columbus Center, Baltimore MD, 1994-1997.

Scientific Consultant, Virtual Explorer. Kent Wilson, Department of Chemistry, University of California at San Diego, CA, 1995-1997.

Consultant in Bionanotechnology, 2015 Future Threat Technologies Panel, CIA Headquarters, MD, August 4, 2000.

Scientist-in-Residence, Exploratorium, San Francisco, CA, 2001-2002.

Thinking Partner, NSF Nanoscale Informal Science Education Network, 2005-2008.

Artist in Residence and Gallery Talk, The Art of Systems Biology & Nanoscience, 333 Montezuma Arts and University of New Mexico, Santa Fe, New Mexico, March 2014.

Visiting Artist, iNANO Visualization Lab and Aarhus Institute for Advanced Studies, Aarhus University, May 2015.

 

Interviews

Fenly, L. (2001) Science News: Portraits in Miniature. San Diego Union Tribune, July 25.

Frankel, F. (2005) Sightings: The Living Cell. American Scientist 93(4), 354-355.

Ghiari, G. (2005) Scienza, Dipingere l'invisibile: Microbi da Esposizione. Quark 58, 114-118.

Gawrylewski, A. (2007) Molecules, monthly. The Scientist, http://www.the-scientist.com/news/display/53588.

Panizon, E. (2007) Illustrazione scientifica. Museo della Scienza: Interattivo e Multimediale, http://immaginarioscientifico.it/is3/archivi/cartoline/set07.html

Honda, T. (2008) Newton, Graphic Science Magazine 2, 42-45.

Trentham, C., Tobyn, G. & Chapman, C. (2016) "Illustrating Ebola" (short film to accompany the 2016 Welcome Image Awards), http://www.wellcomeimageawards.org/2016/ebola-virus

 

Bibliography

Books

1. Goodsell, D.S. (1993) "The Machinery of Life" Springer-Verlag, New York.

2. Goodsell, D.S. (1996) "Our Molecular Nature: The Body's Motors, Machines and Messages" Springer-Verlag, New York.

3. Goodsell, D.S. (2004) "Bionanotechnology: Lessons from Nature" Wiley-Liss, Hoboken.

4. Goodsell, D.S. (2009) "The Machinery of Life," Second Edition, Springer, New York.

 

Columns

"The Art of Molecular Graphics" in The Journal of Molecular Graphics and Modelling

1. Gaber, B.P. & Goodsell, D.S. (1997) Irving Geis: Dean of Molecular Illustrations. Volume 15, 57-59.

2. Goodsell, D.S. & Gaber, B.P. (1998) Color Choices in Molecular Graphics. Volume 16, 101-103.

3. Goodsell, D.S. (1999) 1998 Molecular Graphics Art Show. Volume 17, 55-56.

4. Goodsell, D.S. & Gaber, B.P. (1999) When Left Isn't Right. Volume 17, 143-144.

5. Goodsell, D.S. & Gaber, B.P. (1999) What Does a Molecule Look Like? Volume 17, 219-220.

6. Gaber, B.P. & Goodsell, D.S. (1999) Jaggies Begone! Volume 17, 335-336.

7. Goodsell, D.S. & Gaber, B.P. (2000) Escape From Flatland, Volume 18, 71-72.

8. Goodsell, D.S. & Gaber, B.P. (2000) Seeing is Believing, Volume 18, 173-174.

"The Molecular Perspective" in The Oncologist and Stem Cells

1. Goodsell, D.S. (1999) p53 Tumor Supressor. The Oncologist 4, 138-139; Stem Cells 17, 189-190.

2. Goodsell, D.S. (1999) The ras Oncogene. The Oncologist 4, 263-264; Stem Cells 17, 235-236.

3. Goodsell, D.S. (1999)  Methotrexate. The Oncologist 4, 340-341; Stem Cells 17, 314-315.

4. Goodsell, D.S. (1999) The Multidrug Transporter. The Oncologist 4, 428-429; Stem Cells 17, 377-378.

5. Goodsell, D.S. (1999) Matrix Metalloproteinase 2, The Oncologist 4, 509-511; Stem Cells 18, 73-75.

6. Goodsell, D.S. (2000) DNA. The Oncologist 5, 81-82; Stem Cells 18, 148-149.

7. Goodsell, D.S. (2000) Cyclooxygenase-2. The Oncologist 5, 169-171; Stem Cells 18, 227-229.

8. Goodsell, D.S. (2000) Simian Virus 40. The Oncologist 5, 260-262; Stem Cells 18, 301-303.

9. Goodsell, D.S. (2000) Microtubules and the Taxanes. The Oncologist 5, 345-346; Stem Cells 18, 382-383.

10. Goodsell, D.S. (2000) Caspases. The Oncologist 5, 435-436; Stem Cells 18, 457-458.

11. Goodsell, D.S. (2000) The Ribosome. The Oncologist 5, 508-509; Stem Cells 19, 92-93.

12. Goodsell, D.S. (2001) Targeted Toxins. The Oncologist 6, 110-111; Stem Cells 19, 161-162.

13. Goodsell, D.S. (2001) Cytochrome P450. The Oncologist 6, 205-206; Stem Cells 19, 263-264.

14. Goodsell, D.S. (2001) Ultraviolet Light and Pyrimidine Dimers. The Oncologist 6, 298-299; Stem Cells 19, 348-349.

15. Goodsell, D.S. (2001) Interferons. The Oncologist 6, 374-375; Stem Cells 19, 467-468.

16. Goodsell, D.S. (2001) The src Oncogene. The Oncologist 6, 474-476; Stem Cells 19, 553-555.

17. Goodsell, D.S. (2001) Antibodies. The Oncologist 6, 547-548; Stem Cells 20, 94-95.

18. Goodsell, D.S. (2002) Restriction Endonucleases. The Oncologist 7, 82-83; Stem Cells 20, 190-191.

19. Goodsell, D.S. (2002) Tamoxifen and the Estrogen Receptor. The Oncologist 7, 163-164; Stem Cells 20, 267-268.

20. Goodsell, D.S. (2002) Bcl-2 and Apoptosis. The Oncologist 7, 259-260; Stem Cells 20, 355-356.

21. Goodsell, D. S. (2002) DNA Topoisomerases. The Oncologist 7, 381-382; Stem Cells 20, 470-471.

22. Goodsell, D. S. (2002) Cadherin. The Oncologist 7, 467-468; Stem Cells 20, 583-584.

23. Goodsell, D. S. (2002) VEGF and Angiogenesis. The Oncologist 7, 569-570; Stem Cells 21, 118-119.

24. Goodsell, D. S. (2003) Ubiquitin and the Proteosome. The Oncologist 8, 293-294; Stem Cells 21, 509-510.

25. Goodsell, D. S. (2003) Histone Deacetylase. The Oncologist 8, 389-391; Stem Cells 21, 620-621.

26. Goodsell, D. S. (2003) Epidermal Growth Factor. The Oncologist 8, 496-497; Stem Cells 21, 702-703.

27. Goodsell, D. S. (2003) Protein Farnesyltransferase. The Oncologist 8, 597-598; Stem Cells 22, 119-200.

28. Goodsell, D. S. (2004) DNA Polymerase. The Oncologist 9, 108-109; Stem Cells 22, 236-237.

29. Goodsell, D. S. (2004) Cytochrome c and Apoptosis. The Oncologist 9, 226-227; Stem Cells 22, 428-429.

30. Goodsell, D. S. (2004) Nicotine and Nitrosamines. The Oncologist 9, 353-354; Stem Cells 22, 645-646.

31. Goodsell, D. S. (2004) Polycyclic Aromatic Hydrocarbons. The Oncologist 9, 469-470; Stem Cells 22, 873-874.

32. Goodsell, D. S. (2004) Cyclins. The Oncologist 9, 592-593; Stem Cells 22, 1121-1122.

33. Goodsell, D. S. (2004) Morphine. The Oncologist 9, 717-718; Stem Cells 23, 144-145.

34. Goodsell, D. S. (2005) Major Histocompatibility Complex. The Oncologist 10, 81-81; Stem Cells 23, 454-455.

35. Goodsell, D. S. (2005) L-Asparaginase. The Oncologist 10, 238-239; Stem Cells 23, 710-711.

36. Goodsell, D. S. (2005) Double-Stranded DNA Breaks. The Oncologist 10, 361-362; Stem Cells 23, 1021-1022.

37. Goodsell, D. S. (2005) RAD51 and BRCA2. The Oncologist 10, 555-556; Stem Cells 23, 1434-1435.

38. Goodsell, D. S. (2005) c-Abl Tyrosine Kinase. The Oncologist 10, 758-759; Stem Cells 24, 209-210.

39. Goodsell, D. S. (2006) Tumor Necrosis Factor. The Oncologist 11, 83-84.

40. Goodsell, D. S. (2006) Cisplatin. The Oncologist 11, 316-317; Stem Cells 24, 514-515.

41. Goodsell, D. S. (2006) Estrogen Sulfotransferase. The Oncologist 11, 418-419.

42. Goodsell, D. S. (2006) Tissue Factor. The Oncologist 11, 849-850.

43. Goodsell, D. S. (2006) Alcohol. The Oncologist 11, 1045-1046.

44. Goodsell, D. S. (2007) Hepatitis B Virus. The Oncologist 12, 516-517.

"Recognition in Action" in the Journal of Molecular Recognition

1. Goodsell, D. S. (2005) Flipping Pyrimidine Dimers. J. Mol. Recogition 18, 193-195.

2. Goodsell, D. S. (2005) DNA Mimicry. J. Mol. Recognition 18, 427-430.

3. Goodsell, D. S. (2006) Toll-like Receptors. J. Mol. Recognition 19, 387-388.

 

Book Reviews

1. Goodsell, D. S. (2005) "Into the Nanoworld." Review of "Soft Machines: Nanotechnology and Life" by Richard A. L. Jones. American Scientist 93, 183-184.

 

Internet Publications

1. Goodsell, D.S. (1994-present) Molecular Art|Molecular Science. Professional WWW Site, http://www.scripps.edu/mb/goodsell.

2. Goodsell, D.S. (1999-present) Molecule of the Month. Protein Data Bank, http://www.pdb.org.

3. Rose, P.W., Bluhm, W.F., Beran, B., Bi, C., Dimitropoulos, D., Goodsell, D.S., Prlic, A., Quinn, G.B., Yukich, B., Berman, H.M. & Bourne, P.E. (2011) The RCSB Protein Data Bank: Site Functionality and Bioinformatics Use Cases. NCI Nature Protein Interaction Database, doi: 10.1038/pid.2011.1

 

Animated Films

Larsen, T. L., Goodsell, D. S., Meyer, J. C. & Kantardjieff, T. (2001) "Chemystery." Foundation for Scientific Literacy, San Diego.

Sparling, P., Lee, W., Goodsell D. S. & Klionsky, D. (2012) "Autophagy Suite: A Moving Diorama in Five Parts."

 

Peer-reviewed Scientific Papers

1. Kopka, M.L., Yoon, C., Goodsell, D.S., Pjura, P. & Dickerson, R.E. (1985) The Molecular Origin of DNA-Drug Specificity in Netropsin and Distamycin. Proc. Nat. Acad. Sci. USA 82, 1376-1380.

2. Kopka, M.L., Yoon, C., Goodsell, D.S., Pjura, P. & Dickerson, R.E. (1985) The Binding of an Anti-tumor Drug to DNA: Netropsin and C-G-C-G-A-A-T-T-BrC-G-C-G. J. Mol. Biol. 183, 553-563.

3. Goodsell, D.S. & Dickerson, R.E. (1986) Isohelical Analysis of DNA Groove-binding Drugs. J. Med. Chem. 29, 727-733.

4. Dickerson, R.E., Goodsell, D.S., Kopka, M.L. & Pjura, P.E. (1987) The Effect of Crystal Packing on Oligonucleotide Double Helix Structure. J. Biomol. Struct. Dynam. 5, 557-579.

5. Goodsell, D.S. (1988) RMS: Programs for Generating Raster Molecular Surfaces. J. Mol. Graphics 6, 41-44.

6. Yoon, C., Prive, G.G., Goodsell, D.S. & Dickerson, R.E. (1988) Structure of an Alternating B-DNA Helix and its Relationship to A-tract DNA. Proc. Natl. Acad. Sci. USA 85, 6332-6336.

7. Goodsell, D.S., Mian, I.S. & Olson, A.J. (1989) Rendering of Volumetric Data in Molecular Systems. J. Mol. Graphics 7, 41-47.

8. Larsen, T.A., Goodsell, D.S., Cascio, D., Grzeskowiak, K. & Dickerson, R.E. (1989) The Structure of DAPI Bound to DNA. J. Biomol. Struct. Dynam. 7, 477-491.

9. Goodsell, D.S. & Olson, A.J. (1990) Automated Docking of Substrates to Proteins by Simulated Annealing. Proteins: Struct., Funct. & Genet. 8, 195-202. Includes cover illustration.

10. Olson, A.J. & Goodsell, D.S. (1991) Visualization Blackboard: A Functional View of Proteins. IEEE Comp. Graph. & Appl. 11(1), 15-17.

11. Goodsell, D.S. (1991) Inside a Living Cell. Trends Biochem. Sci. 16, 203-206. Includes cover illustration.

12. Goodsell, D.S. & Olson, A.J. (1991) Molecular Illustration. Pixel 2, 36-41. Includes cover illustration.

13. Olson, A.J. & Goodsell, D.S. (1992) Macromolecular Graphics. Curr. Opinion Struct. Biol. 2, 193-201.

14. Goodsell, D.S. (1992) A Look Inside the Living Cell. Am. Scientist 80(5), 457-465. Includes cover illustration.

15. Olson, A.J. & Goodsell, D.S. (1992) Visualizing Biological Molecules. Sci. Am. 267(5), 76-81.

16. Goodsell, D.S. & Olson, A.J. (1992) Molecular Illustration in Black and White. J. Mol. Graphics 10, 235-240

17. Goodsell, D.S., Kopka, M.L., Cascio, D. & Dickerson, R.E. (1993) Crystal Structure of CATGGCCATG and its Implications for A-Tract Bending Models. Proc. Natl. Acad. Sci. USA 90, 2930-2934.

18. Goodsell, D.S. & Olson, A.J. (1993) Soluble Proteins: Size, Shape and Function. Trends Biochem. Sci. 18, 65-68.

19. Goodsell, D.S., Lauble, H., Stout, C.D. & Olson A.J. (1993) Automated Docking in Crystallography: Analysis of the Substrates of Aconitase. Proteins: Struct., Funct. & Genet. 17, 1-10. Includes cover illustration.

20. Grzeskowiak, K., Goodsell, D.S., Kaczor-Grzeskowiak, M., Cascio, D. & Dickerson, R.E. (1993) Crystallographic Analysis of C-C-A-A-G-C-T-T-G-G, and its Implications for Bending in B-DNA. Biochemistry 32, 8923-8931.

21. Dickerson, R.E., Goodsell, D.S. & Neidle, S.A. (1994) "...the Tyranny of the Lattice..." Proc. Natl. Acad. Sci. USA 91, 3579-3583.

22. Goodsell, D.S., Kaczor-Grzeskowiak, M. & Dickerson, R.E. (1994) B-DNA Bending at the T-A Step: The Structure of C-C-A-T-T-A-A-T-G-G. J. Mol. Biol. 239, 79-96.

23. Goodsell, D.S. & O'Donnell, T.J. (1994) Displays on Display: Molecular Graphics Art Show. IEEE Comp. Graph. & Appl. 14(6), 5-6.

24. Kopka, M.L., Goodsell, D.S., Baikalov, I., Grzeskowiak, K., Cascio, D. & Dickerson, R.E. (1994) The Structure of Anthramycin Covalently Bound to C-C-A-A-C-G-T-T-G- G. Biochem.,  33, 13593-13610.

25. Goodsell, D.S. & Dickerson, R.E. (1994) Bending and Curvature Calculations in B- DNA. Nucl. Acids Res. 22, 5497-5503.

26. Goodsell, D.S., Grzeskowiak, K. & Dickerson, R.E. (1995) The Structure of B-helical C-T-C-T-C-G-A-G-A-G: Implications for the Structure of the Holliday Junction. Biochem 34, 1022-1029.

27. Walker, W.L., Kopka, M.L., Dickerson, R.E. & Goodsell, D.S. (1995) Design of B- DNA Crosslinking and Sequence-Reading Molecules. Biopolymers 35, 543-553.

28. Goodsell, D.S., Kopka, M.L. & Dickerson, R.E. (1995) Refinement of Netropsin Bound to C-G-C-G-A-A-T-T-[brC]-G-C-G: Bias and Feedback in Crystallographic Refinement. Biochem. 34, 4983-4993.

29. Goodsell, D.S., Larsen T.L. & O'Donnell, T.J. (1995) 1994 Molecular Graphics Art Show and Video Show. J. Mol. Graphics 13, 223-234.

30. Goodsell, D.S., Ng, H.L., Kopka, M.L., Lown, J.W. & Dickerson, R.E. (1995) Structure of Dicationic Monoimidazole Lexitropsin Bound to DNA. Biochem. 34, 16654-16661.

31. Morris, G.M., Goodsell, D.S., Huey, R. & Olson A.J. (1996) Distributed Automated Docking of Flexible Ligands to Proteins: Parallel Applications of AutoDock 2.4. J. Comp-Aided Mol. Design 10, 293-304.

32. Goodsell, D.S., Morris, G.M. & Olson, A.J. (1996) Automated Docking of Flexible Ligands: Applications of AutoDock. J. Molec. Recognition 9, 1-5.

33. Dickerson, R.E., Goodsell, D.S. & Kopka, M.L. (1996) MPD and DNA Bending in Crystals and in Solution. J. Mol. Biol. 256, 108-125.

34. Goodsell, D.S. & O'Donnell, T.J. (1997) Molecular Graphics Art Show. Leonardo 30, 153-154.

35. Walker, W.L., Kopka, M.L., Dickerson, R.E. & Goodsell, D.S. (1997) Design of Stapled DNA-Minor-Groove-Binding Molecules with a Mutable Atom Simulated Annealing Method. J. Comp.-Aided Molec. Design 11, 539-546.

36. Kopka, M.L., Goodsell, D.S., Han, G.W. Chiew, T.K. & Dickerson, R.E. (1997) Defining GC-Specificity in the Minor Groove: Side-by-side Binding of a Di- imidazole Lexitropsin to C-A-T-G-G-C-C-A-T-G. Structure 5, 1033-1046.

37. Walker, W.L., Landaw, E.M., Dickerson, R.E. & Goodsell, D.S. (1997) Estimation of the DNA Sequence Discriminatory Ability of Hairpin-linked Lexitropsins. Proc. Natl. Acad. Sci. USA 94, 5634-5639.

38. Olson, A.J. & Goodsell, D.S. (1998) Automated Docking and the Search for HIV Protease Inhibitors. SAR and QSAR in Environmental Research 8, 273-285.

39. Walker, W.L., Landaw, E.M., Dickerson, R.E. & Goodsell, D.S. (1998) The Theoretical Limits of DNA Sequence Discrimination by Linked Polyamides. Proc. Natl. Acad. Sci. USA 95, 4315-4320.

40. Larsen, T.A., Olson, A.J. & Goodsell, D.S. (1998) Morphology of Protein-Protein Interfaces. Structure 6, 421-427.

41. Goodsell, D.S. (1998) Molecules into Cells: Depicting the Cellular Mesoscale. Leonardo 31, 278

42. Walker, W.L., Kopka, M.L. & Goodsell, D.S. (1998) Progress in the Design of DNA- Sequence-Specific Lexitropsins. Biopolymers Nucl. Acids 44, 323-334. Includes cover illustration.

43. Morris, G.M., Goodsell, D.S., Halliday, R.S., Huey, R., Hart, W.E., Belew, R.K. & Olson, A.J. (1998) Automated Docking using a Lamarkian Genetic Algorithm and an Empirical Binding Free Energy Function. J. Comp. Chem. 19, 1639-1662.

44. Rosin, C.D., Belew, R.K., Morris, G.M., Olson, A.J. & Goodsell, D.S. (1998) Computational Coevolution of Antiviral Drug Resistance. Artificial Life4, 41-59.

45. Walker, W.L., Goodsell, D.S. & Landaw, E.M. (1998) An Analysis of a Class of DNA Sequence Reading Molecules. J. Comp. Biol. 5, 571-583.

46. Macke, T.J., Duncan, B.S., Goodsell, D.S. & Olson, A.J. (1998) Interactive Modeling of Supramolecular Assemblies. J. Mol. Graphics 16, 115-120.

47. Rosin, C.D., Belew, R.K., Morris, G.M., Olson, A.J. & Goodsell, D.S. (1999) Coevolutionary Analysis of Resistance-Evading HIV-1 Protease Inhibitors. Proc. Natl. Acad. Sci. USA 96, 1369-1374.

48. Rosin, C.D., Belew, R.K., Walker, W.L., Morris, G.M., Olson, A.J. &  Goodsell, D.S. (1999) Coevolution and Subsite Decomposition for the Design of Resistance-Evading HIV-1 Protease Inhibitors. J. Mol. Biol. 287, 77-92.

49. Soares, T.A., Goodsell, D.S., Briggs, J.M., Ferreira, R. & Olson, A.J. (1999) Docking of 4-Oxalocrotonate Tautomerase Substrates: Implications for the Catalytic Mechanism. Biopolymers 50, 319-328.

50. Goodsell, D.S. (1999) Where Two World Collide: Art Meets Science. Chemistry and Industry 9, 348-353.

51. Soares, T., Goodsell, D.S., Ferreira, R., Olson, A.J., Briggs, J.M. (2000) Ionization State and Molecular Docking Studies for the Macrophage Inhibitory Factor: the Role of Lysine 32 in the Catalytic Mechanism. J. Molec. Recognition 13, 146-156.

52. Goodsell, D.S. & Olson, A.J. (2000) Structural Symmetry and Protein Function. Ann. Rev. Biophys. Biomol. Struct. 29, 105-153. Reprinted in: Biophysics Textbook Online, Supramolecular Assemblies, http://biosci.umn.edu/biophys/BTOL. Biophysical Society (V. Bloomfield, ed.) Chapter 14.

53. Goodsell, D.S. (2000) Illustrating the Machinery of Life. J. Biocommunication 27(4), 12-18.

54. Goodsell, D.S. (2000) Biomolecules and Nanotechnology. Am. Scientist 88, 230-237. Includes cover illustration.

55. Goodsell, D.S. (2001) Sequence Recognition of DNA by Lexitropsins. Curr. Med. Chem. 8, 509-516.

56. Zhao, S., Goodsell, D.S. & Olson, A.J. (2001) Analysis of a Dataset of Paired Uncomplexed Protein Structures: New Metrics for Sidechain Flexibility and Model Evaluation. Proteins: Struct. Funct. & Genet. 43, 271-279.

57. Zhao S., Morris, G.M., Olson, A.J. & Goodsell, D.S. (2001) Recognition Templates for Predicting Adenylate-binding Sites in Proteins. J. Mol. Biol. 314, 1245-1255.

58. Osterberg, F., Morris G.M., Sanner, M.F., Olson, A.J. & Goodsell, D.S. (2002) Automated Docking to Multiple Target Structures: Incorporation of Protein Mobility and Structural Water Heterogeneity in AutoDock. Proteins: Struct. Funct. & Genet. 46, 34-40.

59. Goodsell, D.S. (2002) Representation and Misrepresentation in Biomolecular Science. Theo. Hist. Sci. 6, No. 2, 121-134.

60. Goodsell, D.S. (2002) A Hierarchical Model of HIV-1 Protease Drug Resistance. Appl. Bioinformatics 1, 3-12.

61. Stoffler, D., Sanner, M.F., Morris, G.M., Olson, A.J. & Goodsell, D.S. (2002) Evolutionary Analysis of HIV-1 Protease Inhibitors: Methods for Design of Inhibitors that Evade Resistance. Proteins: Struct. Funct. Genet. 48, 63-74.

62. Berman, H.M., Goodsell, D.S. & Bourne, P.E. (2002) Protein Structures: From Famine to Feast. Am. Sci. 90, 350-359. Includes cover illustration.

63. Yang, P., Craig, P. A., Goodsell, D.S. & Bourne, P.E. (2003) BioEditor - Simplifying Macromolecular Structure Annotation. Bioinformatics 19, 897-898.

64. Goodsell, D. S. (2003) Looking at Molecules--An Essay on Art and Science. ChemBioChem 4, 1-5.

65. Rosenfeld, R. J., Goodsell, D. S., Musah, R. A., Morris, G. M., Goodin, D. B. & Olson, A. J. (2003) Automated Docking of Ligands to an Artificial Active Site: Augmenting Crystallographic Analysis with Computer Modeling. J. Comp. Aided Mol. Design 17, 525-536.

66. Brik, A., Muldoon, J., Lin, Y.-C., Elder, J.H., Goodsell, D.S., Olson, A. J., Fokin, V. V., Sharpless, K. B. and Wong, C.-H. (2003) Rapid Diversity-Oriented Synthesis in Microtiter Plates for In Situ Screening of HIV Protease Inhibitors. ChemBioChem 4, 1246-1248.

67. Huey, R., Goodsell, D. S., Morris, G. M. & Olson, A. J. (2004) Grid-Based Hydrogen Bond Potentials with Improved Directionality. Letters Drug Design Discovery 1, 88-93.

68. Goodsell, D. S. (2005) Visual Methods from Atoms to Cells. Structure 13, 347-354.

69. Berman, H. M., Ten Eyck, L. F., Goodsell, D. S., Haste, N. M., Kornev, A. & Taylor, S. S. (2005) The cAMP Binding Domain: An Ancient Signaling Module. Proc. Natl. Acad. Sci. USA 102, 45-40.

70. Cheng, T.-J., Goodsell, D. S. & Kan, C.-C. (2005) Identification of Sanguinarine as a Novel HIV Protease Inhibitor from in Vivo High-Throughput Screening of 2,000 Drugs and Natural Products with a Cell-based Assay. Letters Drug Design Discovery 2, 364-371.

71. Brik, A., Alexandros, J., Lin, Y.-C., Elder, J.H., Olson, A.J., Wlodawer, A., Goodsell, D.S. & Wong, C.-H. (2005) 1,2,3-Triazole as a Peptide Surrogate in the Rapid Synthesis of HIV Protease Inhibitors. ChemBioChem 6, 1167-1169.

72. Beuscher, A., Olson, A. J. & Goodsell, D. S. (2005) Identifying Protein Binding Sites and Optimal Ligands. Letters Drug Design Discovery 2, 483-489.

73. Goodsell, D. S. (2006) Seeing the Nanoscale. NanoToday 1(3), 44-49.

74. Herman, T., Morris, J., Colton, S., Batiza, A., Patrick, M., Franzen, M. & Goodsell, D. S. (2006) Tactile Teaching: Exploring Protein Structure/Function Using Physical Models. Biochem. Mol. Biol. Education (BAMBED) 34, 247-254.

75. Huey, R., Morris, G. M., Olson, A. J. & Goodsell, D. S. (2007) A Semi-empirical Free Energy Force Field with Charge-based Desolvation. J. Comp. Chem. 28, 1145-1152.

76. Goodsell, D. S. (2007) Making the Step from Chemistry to Biology and Back. Nature Chem. Biol. 3, 681-684.

77. Harris, R., Olson, A. J. & Goodsell, D. S. (2007) Automated Prediction of Ligand-Binding Sites in Proteins. Proteins Struct. Funct. Bioinf. 70, 1506-1517.

78. Goodsell, D. S. & Johnson, G. T. (2007) Filling the Gaps: Artistic License in Education and Outreach. PLoS Biology 5:12, 2759-2762.

79. Chang, M. W., Belew, R. K., Carroll, K. S., Olson, A. J. & Goodsell, D. S. (2008) Empirical Entropic Contributions in Computational Docking: Evaluation in APS Reductase Complexes. J. Comput. Chem. 29, 1753-1761.

80. Cosconati, S., Hong, J. A., Novellino, E., Carroll, K. S., Goodsell, D. S. & Olson, A. J. (2008) Structure-Based Virtual Screening and Biological Evaluation of Mycobacterium tuberculosis Adenosine 5Ġ-Phosphosulfate Reductase Inhibitors. J. Med. Chem. 51, 6627-6630.

81. Goodsell, D. S. (2009) Fact and Fantasy in Nanotech Imagery. Leonardo 42, 52-57.

82. Goodsell, D. S. (2009) Illustrating the Machinery of Life: Neuromuscular Synapse. Biochem. Mol. Biol. Education 37, 204-210.

83. Morris, G. M., Huey, R., Lindstrom, W., Sanner, M. F., Belew, R. K., Goodsell, D. S. & Olson, A. J. (2009) AutoDock4 and AutoDockTools4: Automated Docking with Selective Receptor Flexibility. J. Comp. Chem. 30, 2785-2791.

84. Goodsell, D. S. (2009) Illustrating the Machinery of Life: Escherichia coli. Biochem. Mol. Biol. Education 37, 325-332.

85. Goodsell, D. S. (2009) Getting the Most Out of the Protein Data Bank. J. Biocommunication 35(3), E52-E57.

86. Goodsell, D. S. & Klionsky, D. J. (2010) Artophagy: The Art of Autophagy—The CVT Pathway. Autophagy 6, 3-6.

87. OĠDonoghue, S. I., Gavin, A.-C., Gehlenborg, N., Goodsell, D. S., Heriche, J.-K., Nielsen, C. B., North, C., Olson, A. J., Procter, J. B., Shattuck, D. W., Walter, T. & Wong, B. (2010) Visualizing Biological Data—Now and in the Future. Nature Methods 7, S2-S4.

88. OĠDonoghue, S. I., Goodsell, D. S., Frangakis, A. S., Jossinet, F., Laskowski, R. A., Nilges, M., Saibil, H. R., Schafferhans, A., Wade, R. C., Westhof, E. & Olson, A. J. (2010) Visualization of Macromolecular Structures. Nature Methods 7, S42-S55.

89. Goodsell, D. S. (2010) Illustrating the Machinery of Life: Mitochondrion Biochem. Mol. Biol. Education 38, 134-140.

90. Cosconati, S., Forli, S., Perryman, A. L., Harris, R., Goodsell, D.S. & Olson, A.J. (2010) Virtual Screening with AutoDock: Theory and Practice. Expert Opinion in Drug Discovery 5, 597-607.

91. Dutta, S., Zardecki, C., Goodsell, D. S. & Berman, H. M. (2010) Promoting a Structure View of Biology for Varied Audiences: An Overview of RCSB PDB Resources and Experiences. J. Appl. Cryst. 43(5), 1224-1229.

92. Goodsell, D. S. (2010) The Protein Data Bank: Exploring Biomolecular Structure. Nature Education 3(9): 39.

93. Rose, P. W., Beran, B., Bi, C., Bluhm, W. F., Dimitropoulos, D., Goodsell, D. S., Prlic, A., Quesada, M., Quinn, G. B., Westbrook, J. D., Young, J., Yukich, B., Zardecki, C., Berman, H. M. & Bourne, P. E. (2011) The RCSB Protein Data Bank: Redesigned Web Site and Web Services. Nucleic Acids Res. 39, D392-401. Doi 10.1093/nar/gkq1021.

94. Goodsell, D. S. (2011) Illustrating the Machinery of Life: Eukaryotic Cell Panorama. Biochem. Mol. Biol. Education 39, 91-101.

95. Johnson, G.T., Autin, L., Goodsell. D. S., Sanner, M. F. & Olson, A. J. (2011) ePMV Embeds Molecular Modeling into Professional Animation Software Environments. Structure 19, 293-303.

96. Leonard, S. E., Garcia, F. J., Goodsell, D. S. & Carroll, K. S. (2011) Redox-based Probes for Protein Tyrosine Phosphatases. Angew. Chem. Int. Ed. 50, 4423-4427.

97. Goodsell, D. S. (2011) Atomic Evidence: the Foundations of Structural Science. Science Progress 94, 414-430.

98. Cosconati, S., Marinella, L., Di Leva, F. S., La Pietra, V., De Simone, A., Mancini, F., Andrisano, V., Novellino, E., Goodsell, D. S. & Olson, A. J. (2012) Protein Flexibility in Virtual Screening: The BACE-1 Case Study. J. Chem. Inf. Model. 52, 2697-2704.

99. Goodsell, D. S. (2012) Illustrating the Machinery of Life: Viruses. Biochem. Mol. Biol. Education 40, 291-296.

100. Goodsell, D. S. (2012) Putting Proteins in Context. Bioessays 34, 718-720.

101. Batiza, A. F., Gruhl, M., Zhang, B., Harrington, T., Roberts, M., LaFlamme, D., Haasch, M. A., Knopp, J.M., Vogt, G., Goodsell, D., Hagedorn, E., Marcey, D., Hoelzer, M. & Nelson, D. (2013) The effects of the SUN project on teacher knowledge and self-efficacy regarding biological energy transfer are significant and long-lasting: results of a randomized controlled trial. CBE-Life Science Education 12, 287-305.

102. Rose, P. W., Bi, C., Bluhme, W. F., Christie, C. H., Dimitropoulos, D., Dutta, S., Green, R. K., Goodsell, D. S., Prlic, A., Quesada, M., Quinn, G. B., Ramos, A. G., Westbrook, J. D., Young, J., Zardecki, C., Berman, H. M. & Bourne, P. E. (2013) The RCSB Protein Data Bank: new resources form research and education. Nucleic Acids Research 41, D475-482. Doi 10.1093/nar/gks1200.

103. Span, E. A., Goodsell, D. S., Ramchandran, R., Franzen, M. A., Herman, T. & Sem, D. S. (2013) Protein structure in context: the molecular landscape of angiogenesis. Biochem. Mol. Biol. Education 41, 213-223.

104. Goodsell, D. S., Burley, S. K. & Berman, H. M. (2013) Revealing structural views of biology. Biopolymers 99, 817-824.

105. Goodsell, D. S. (2013) The twists and turns of DNA. The Biologist 60(6), 18-22.

106. Goodsell, D. S. (2014) Bridging boundaries in molecular and cellular visualization. BioZoom 3, 6-8.

107. Goodsell, D. S. & Haas, D. (2014) Visualizing microorganisms from molecules to cells. FEMS Microbiol. Lett. 356, 1-7.

108. Johnson, G. T., Goodsell, D. S., Autin, L., Forli, S., Sanner, M. F. & Olson, A. J. (2014) 3D molecular models of whole HIV-1 virions generated with cellPACK. Faraday Discuss. DOI 10.1039/c4fd00017j.

109. Rose, P. W., Prlic, A., Bi, C., Bluhm, W. F., Christie, C. H., Dutta, S., Green, R. K., Goodsell, D. S., Westbrook, J. D., Woo, J., Young, J., Zardecki, C., Berman, H. M., Bourne, P. E. & Burley, S. K. (2015) The RCSB Protein Data Bank: views of structural biology for basic and applied research and education. Nucleic Acids Research 43, D345-D356. Doi 10.1093/nar/gku1214.

110. Goodsell, D. S., Dutta, S., Zardecki, C., Voigt, M., Berman, H. M. & Burley, S. K. (2015) The RCSB PDB "Molecule of the Month": Inspiring a molecular view of biology. PLoS Biology 13(5), e1002140. DOI:10.1371/journal.pbio.1002140.

111. Goodsell, D. S. (2015) Illustrations of the HIV life cycle. Curr. Top. Microbiol. Immunol. 389, 243-252.

112. Johnson, G. T., Autin, L., Al-Alusi, M. Goodsell, D. S., Sanner, M. F. & Olson, A. J. (2015) cellPACK: A virtual mesoscope to model and visualize structural systems biology. Nat. Methods 12, 85-91.

113. Ravindranath, P. A., Forli, S., Goodsell, D. S., Olson, A. J. & Sanner, M. F. (2015) AutoDockFR: Advances in protein-ligand docking with explicitly specified binding site flexibility. PLoS Computational Biology 11(12), e1004586. DOI:10.1371/journal.pcbi/1004586.

114. Forli, S., Huey, R., Pique, M. E., Sanner, M. F., Goodsell, D. S. & Olson, A. J. (2016) Computational protein-ligand docking and virtual drug screening with the AutoDock suite. Nat. Protocols 11, 905-919.

 

Symposium Proceedings and Book Chapters

1. Kopka, M.L., Pjura, P., Yoon, C., Goodsell, D.S. & Dickerson, R.E. (1985) The Binding of Netropsin to Double-Helical B-DNA of Sequence C-G-C-G-A-A-T-T-BrC-G-C-G: Single Crystal X-Ray Structure Analysis. In Structure and Motion: Membranes, Nucleic Acids and Proteins (E. Clementi, G. Corongiu, M.H. Sarma & R. Sarma, eds.) Adenine Press, New York, pp. 461-483. Includes cover illustration.

2. Dickerson, R.E., Pjura, P., Kopka, M.L., Goodsell, D.S. & Yoon, C. (1985) Rational Design of DNA Minor Groove-Binding Anti-Tumor Drugs. In Crystallography in Molecular Biology, Proceedings of the NATO Advanced Study Institute and EMBO Lecture Course, Bischenberg, Alsace, France, September 1985. NATO ASI Series (D. Moras, ed.) Plenum, New York, pp. 209-221.

3. Eisenberg, D., Wesson, M., Goodsell, D.S., Wilcox, W., Gribskov, M., Altschuh, D. & Rees, D.C. (1987) Solvation Energy Contributions to Binding Energies. In Protein Structure, Folding and Design 2, Alan R. Liss, pp 203-213.

4. Kopka, M.L., Pjura, P.E., Goodsell, D.S. & Dickerson, R.E. (1987) Drugs and Minor Groove Binding in DNA: Netropsin and Hoeschst 33258. In Nucleic Acids and Molecular Biology, Springer Verlag, Berlin, pp 1-24.

5. Goodsell, D.S. & Olson, A.J. (1989) Molecular Applications of Volume Rendering and 3-D Texture Maps. In Proceedings of the Volume Visualization Workshop, Chapel Hill, NC, May 1989. Department of Computer Science, University of North Carolina, Chapel Hill, NC, pp 27-31. Includes cover illustration.

6. Goodsell, D.S. & Olson, A.J. (1990) Rendering Volumetric Data in Biological Systems. In Bioimaging and Two-Dimensional Spectroscopy (L.C. Smith, ed.) Proc. SPIE 1205, pp. 117-124.

7. Goodsell, D.S., Grzeskowiak, K., Kopka, M.L. & Dickerson, R.E. (1994) Base Pair Roll and Tilt in B-DNA Bending. In Structural Biology: State of the Art (R.H. Sarma & M.H.Sarma, eds.) Adenine Press, New York, pp. 215-220.

8. Goodsell, D.S. (1995) Molecules in Living Cells. In Principles of Medical Biology, Vol. 3: Cellular Organelles and the Extracellular Matrix (Bittar & Bittar, eds.) JAI Press, Greenwich, CT, pp. 173-180.

9. Rosin, C.D., Belew, R.K., Morris, G.M., Olson, A.J. & Goodsell, D.S. (1998) Computational Coevolution of Antiviral Drug Resistance. In Proceedings of the Sixth International Conference on Artificial Life (C. Adami, R.K. Belew, H. Kitano & C.E. Taylor, eds.) MIT Press, Cambridge, pp. 81-90.

10. Goodsell, D.S. (1999) Atomistic vs. Continuous Representations in Molecular Biology. In Visual Representations and Interpretations (R. Paton and I. Nelson, eds.) Springer Verlag, London, pp. 146-155.

11. Walker, W.L., Goodsell, D.S., Dickerson, R.E. & Landaw, E.M. (1999) A Preliminary Multiobjective Analysis of the Chemotherapeutic Benefits of Hairpin-Linked Polyamides. In Rational Drug Design, The IMA Volumes in Mathematics and Its Applications.  (D.G. Truhlar, W. J. Howe, A. J. Hopfinger, J. Blaney & R. A. Dammkoehler, eds.) Springer Verlag, New York, pp. 81-92.

12. Morris, G.M., Olson, A.J. & Goodsell, D.S. (2000)  Protein-Ligand Docking. In Evolutionary Algorithms in Molecular Design (D.E. Clark, ed.) Wiley-VCH, Weinheim, Germany, pp. 31-48.

13. Goodsell, D.S. (2003) Illustrating Molecules. In The Guild Handbook of Scientific Illustration, Second Edition (E.R.S. Hodges, ed.) Chapter 15, pp. 267-270. J. Wiley and Sons, New Jersey.

14. Gillet, A., Sanner, M., Stoffler, D., Goodsell, D. S. and Olson, A. J. (2004) Augmented Reality with Tangible Auto-fabricated Models for Molecular Biology Applications. In Proceedings of the IEEE Visualization 2004, IEEE Computer Society, Washington, DC, pp 235-242.

15. Gillet, A., Goodsell, D., Sanner, M. F., Stoffler, D. & Olson, A. J. (2004) Computer-linked Autofabricated 3D Models for Teaching Structural Biology. In Proceedings of SIGGRAPH 2004, Association for Computing Machinery.

16. Goodsell, D.S. (2005) Computational Docking of Biomolecular Complexes with AutoDock. In Protein-Protein Interactions, A Molecular Cloning Manual, Second Edition (E. A. Golemis and P. D. Adams, ed.). Cold Spring Harbor Laboratory Press, New York, pp 885-892.

17. Goodsell, D.S. (2005) Representing Structural Information. Current Protocols in Bioinformatics, J. Wiley and Sons, Hoboken, New Jersey, pp 5.4.1-5.4.23.

 

Original Art and Illustration

1. Goodsell, D.S. & Curlender, D. (1984) Two illustrations. In Johnston, R. "Light Relief" Vogue 141, 120-122.

2. Goodsell, D.S. & Curlender, D. (1985) "The Dancer" & "Larger Than Life" In Picture Gallery; Lead illustration in Art and Animation. IEEE Comp. Graph. & Appl. 5, 10- 12, 31.

3. Goodsell, D.S. (1986) Cover illustration. UCLA Med. 9.

4. Goodsell, D.S. & Olson, A.J. (1989) Cover illustration. Comm. ACM 32, No. 4.

5. Goodsell, D.S. & Olson, A.J. (1989) Technical Slide 73, Stereo Slides 1+2, 5+6, 7+8, 9+10. SIGGRAPH 1989 Slide Sets.

6. Goodsell, D.S. & Olson, A.J. (1990) Technical Slide 41. SIGGRAPH 1990 Slide Set.

7. Goodsell, D.S. (1991) Technical Slide 74, Stereo Slide 9+10. SIGGRAPH 1991 Slide Sets.

8. Goodsell, D.S. (1992) "Intimacies" (color photocopy). Shown at SIGGRAPH 1992 Art Show. Slide 23, SIGGRAPH 1992 Art Show Slide Set. Collection of Ellen Sandor.

9. Goodsell, D.S. (1992) Technical Slide 14. SIGGRAPH 1992 Slide Sets.

10. Goodsell, D.S. (1994) Cover illustration. In Scopes, R.K. "Protein Purification" Springer-Verlag, New York.

11. Goodsell, D.S. (1994) "Inside a Eukaryotic Cell" (picture essay) & "Picturing Biochemistry" (cover illustration) In Moran, L.A. & Scrimgeour, K.G. "Biochemistry" Neil Patterson Publishers/Prentice Hall, North Carolina. "Picturing Biochemistry" shown at Molecular Graphics Art Show, Block Gallery, Northwestern University, Chicago, July 1994. Picturing Biochemisty, collection of T. J. O'Donnell.

12. Goodsell, D.S. (1997) "Cytoplasm with Small Molecules, 2,000,000X." In Guttman, B. & Hopkins, J. "Biology" W.C. Brown Communications, Dubuque, Iowa. Collection of Linda Nye.

13. Goodsell. D.S. (1998) "Immune Recognition" (cover illustration). In "1996-1997 Scientific Report" of the Scripps Research Institute, La Jolla, California. Shown in HMSBeagle (http://www.biomednet.com/hmsbeagle) Art Gallery, Issue 72, February 2000. Reprinted in "Art and Medicine: Art at the Molecular Level" Heart Views 1, 284 (2000); Betts, M. (2004) "The Human Body" Walker & Company, New York. Collection of Lucy Pawlak.

14. Goodsell, D.S. (1999) "Prokaryotic Compartmentation" and "Cellulosome." In Hoppert, M. and Mayer, F. "Prokaryotes" Am. Scientist. 87, 518-525. Reprinted in: Prescott, L.M, Harley, J.P. & Klein D.A. "Microbiology" McGraw-Hill, New York, 2002; Hapgood, F. (2003) "A Microbe Enters the Matrix" Wired 9, 42; Dobson, C. M. (2004) "Crossing the Boundary" Nature 432, 444-445; Pielak, G. J. (2005) "A Model of Intracellular Organization" Proc. Natl. Acad. Sci. USA 102, 5001-2002; Szilagyi, A., Grimm, V., Arakaki, A.K. & Skolnick, J. (2005) "Prediction of Physical Protein-Protein Interaction" Phys. Biol. 2, S1-S16. Collection of Michelle Hoffman and Linda Huff, respectively.

15. Goodsell, D.S. (2000) "Nuclear Pore Complex" (cover illustration). In Cooper, G.M. "The Cell: A Molecular Approach" ASM Press/Sinauer Associates, Sunderland, Mass.

16. Goodsell, D.S. (2002) "Macrophage and Bacterium 2,000,000X." Commission for the Center of Integrative Molecular Biosciences, Scripps Research Institute, La Jolla, California. Cover illustration for National Science Foundation FY2005 Summary of Budget Request to Congress.

17. Goodsell, D.S. (2003) "How Does a Muscle Work?" Mark McGowan, graphic designer. Poster in the Exploratorium Quarterly, Winter 2003. Honorable Mention for Informational Graphics in the 2007 National Science Foundation Visualization Challenge, Science 317, 1857-1863 (2007).

18. Goodsell, D.S. (2005) "Erythropoietin" (journal illustration). In Ritter, S. "Erythropoietin" Chemical and Engineering News Vol. 83, No. 25, Pg. 64.

19. Goodsell, D.S. and Johnson, G. (2005) "Biopolis." Commission in seven panels for Biopolis, Singapore.

20. Goodsell, D.S. (2005) "Biosites." Commission in six panels for Biosite, San Diego.

21. Goodsell, D. S. (2006) "Autophagy." Commission for Dan Klionsky, University of Michigan, Ann Arbor. Cover illustration for the Journal of Cell Biology, Volume 175(6), 2006.

22. Goodsell, D. S. (2006) "Hematopoiesis." Commission for Kenneth Kaushansky, University of California, San Diego.

23. Goodsell, D. S. (2006) Illustrations for Renneberg, R. "Biotechnologie fur Einsteiger" Elsevier, Munich.

24. Goodsell, D. S. (2007) Illustrations for "Inside DNA," a traveling exhibition from At-Bristol, Bristol, UK.

25. Goodsell, D. S. (2007) "Prions 2,000,000X" Commission for the Alberta Ingenuity Fund.

26. Goodsell, D. S. (2008) "Autophagy 2,000,000X" Commission for D. Klionsky.

27. Simpson, Z., Goodsell, D. S., Siegel, E. & Batt, C (2008) "Diffusion" interactive exhibit with the New York Hall of Science and the NSF Nano Informal Science Education Network.

28. Goodsell, D. S. (2008) Cover Illustration for Cooper, G. M. and Hausman, R. E. "The Cell: A Molecular Approach, Fifth Edition" Sinauer.

29. Goodsell, D. S. (2008) "HSV in Cytoplasm" Commission for Lynn Enquist.

30. Goodsell, D. S. (2008) "EPO" Commission for Nature Biotechnology.

31. Goodsell, D. S. (2009) Illustrations for "Proteomimicry" at American Scientist.

32. Goodsell, D. S. (2010) "Glycogen Garden" Commission for David Dahlquist

33. Goodsell, D. S. (2010) "Insulin Action" Commission for "The Chemistry of Life" at Medical Museion, University of Copenhagen.

34. Goodsell, D. S. (2010) "Atg8" Commission for D. Klionsky.

35. Goodsell, D. S. (2010) Illustrations for Phillips, R. Kondev, J., Theriot, J. & Garcia, H. "Physical Biology of the Cell" Garland Science.

36. Goodsell, D. S. (2011) "Exocytosis" Commission for J. Taraska.

37. Goodsell, D. S. (2011) "Glucagon Action" Commission for "The Chemistry of Life" at Medical Museion, University of Copenhagen.

38. Goodsell, D. S. (2011) "Autophagy" Commission for D. Klionsky.

39. Goodsell, D. S. (2011) "Laminin" Commission for D. Fass.

40. Goodsell, D. S. (2011) "Mycoplasma 2,000,000X" Commission for Field Test Independent Films Corps "Synthetic Biology"

41. Goodsell, D. S. (2011) Cover illustration for "Protein images with fluorescence in living cells," Trends in Biotechnology 30, No. 1.

42. Goodsell, D. S. (2012) "Anaphase Promoting Complex" Commission for B. Schulman.

43. Goodsell, D. S. (2012) "Blood 2,000,000X" Commission for I. Carstairs.

44. Goodsell, D. S. (2012) Cover llustration for Cooper, G. M. and Hausman, R. E. "The Cell: A Molecular Approach, Sixth Edition" Sinauer.

45. Goodsell, D. S. (2012) "Edge Detection" Commission for C. Voigt.

46. Goodsell, D. S. (2013) "Serum Albumin" Commission for Sigma.

47. Goodsell, D. S. (2013) "Synapse" Commission for J. Taraska.

48. Goodsell, D. S. (2013) Five panels for Southwest Fisheries Science Center.

49. Goodsell, D. S. (2013) "Endocytosis" Commission for W. Min.

50. Goodsell, D. S. (2013) "Rod Synapse" and digital illustrations for R. Phillips "Biological Physics".

51. Goodsell, D. S. (2013) "Bacterial Nucleoid" Commission for S. Jun.

52. Goodsell, D. S. (2014) Illustrations for "Physical Models of Living Systems," P. Nelson.

53. Goodsell, D. S. (2015) "Influenza Infection" Commission for 3D Molecular Systems.

 

Showing of Artwork

Group Show. Annual Meeting of the Guild of Natural Science Illustrators. Richland, Washington. August 7-13, 1999.

Group Show. "Image and Meaning: Envisioning and Communicating Science and Technology." Massachusetts Institute of Technology. June 13-16, 2001.

Group Show. "The Art of Science - Images from the Protein Data Bank." The Gallery, Rutgers University, New Jersey. January-February, 2002. Currently traveling.

Feature Exhibit. 57th Annual Meeting of the Association of Medical Illustrators. Austin, Texas. July 24-28, 2002.

Group Show. "Art of Science." Atrium Gallery, California State University at Fullerton, October-December 2003.

Group Show. "The Beauty of Phenomena: Art in the Communication of Science." National Academy of Sciences, Washington, D.C., April-September 2003. New York Hall of Science, Queens, New York, December 2003-March 2004. Fresno Museum of Art, History and Science, Fresno, California, July-October 2004.

Group Show. "Annual Members Exhibition of the Guild of Natural Science Illustrators." Jacobs Gallery, Hult Center for the Performing Arts, Eugene, Oregon, June-July 2005.

Group Show. "The Visual Communication of Science." Sunderland Museum and Winter Gardens, Sunderland, UK, September-October 2007; MISM, Manchester, UK, November-December 2007; Nobel Museum, Stockholm, Sweden, February-June 2008. Catalogue: Wheeler, S. and Long, A. "Design4Science: the Visual Communication of Science," Gmelin Press and the University of Sunderland, 2007.

Featured Artist. "The Art of Systems Biology & Nanoscience." 333 Montezuma Arts, Santa Fe, March 2014.