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Evolution of the SARS-CoV-2 proteome in three dimensions (3D) during the first six months of the COVID-19 pandemic
View ORCID ProfileJoseph H. Lubin, Christine Zardecki, Elliott M. Dolan, Changpeng Lu, Zhuofan Shen, Shuchismita Dutta, John D. Westbrook, Brian P. Hudson, David S. Goodsell, Jonathan K. Williams, Maria Voigt, Vidur Sarma, Lingjun Xie, Thejasvi Venkatachalam, Steven Arnold, Luz Helena Alfaro Alvarado, Kevin Catalfano, Aaliyah Khan, Erika McCarthy, Sophia Staggers, Brea Tinsley, Alan Trudeau, Jitendra Singh, Lindsey Whitmore, Helen Zheng, Matthew Benedek, Jenna Currier, Mark Dresel, Ashish Duvvuru, Britney Dyszel, Emily Fingar, Elizabeth M. Hennen, Michael Kirsch, Ali A. Khan, Charlotte Labrie-Cleary, Stephanie Laporte, Evan Lenkeit, Kailey Martin, Marilyn Orellana, Melanie Ortiz-Alvarez de la Campa, Isaac Paredes, Baleigh Wheeler, Allison Rupert, Andrew Sam, Katherine See, Santiago Soto Zapata, Paul A. Craig, Bonnie L. Hall, Jennifer Jiang, Julia R. Koeppe, Stephen A. Mills, Michael J. Pikaart, Rebecca Roberts, Yana Bromberg, J. Steen Hoyer, Siobain Duffy, Jay Tischfield, Francesc X. Ruiz, Eddy Arnold, Jean Baum, Jesse Sandberg, Grace Brannigan, Sagar D. Khare, Stephen K. Burley
doi: https://doi.org/10.1101/2020.12.01.406637
Joseph H. Lubin
1Institute for Quantitative Biomedicine, Rutgers, The State University of New Jersey, Piscataway, NJ USA
2Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ USA
Christine Zardecki
1Institute for Quantitative Biomedicine, Rutgers, The State University of New Jersey, Piscataway, NJ USA
3Research Collaboratory for Structural Bioinformatics Protein Data Bank, Rutgers, The State University of New Jersey, Piscataway, NJ USA
Elliott M. Dolan
1Institute for Quantitative Biomedicine, Rutgers, The State University of New Jersey, Piscataway, NJ USA
2Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ USA
Changpeng Lu
1Institute for Quantitative Biomedicine, Rutgers, The State University of New Jersey, Piscataway, NJ USA
Zhuofan Shen
1Institute for Quantitative Biomedicine, Rutgers, The State University of New Jersey, Piscataway, NJ USA
2Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ USA
Shuchismita Dutta
1Institute for Quantitative Biomedicine, Rutgers, The State University of New Jersey, Piscataway, NJ USA
3Research Collaboratory for Structural Bioinformatics Protein Data Bank, Rutgers, The State University of New Jersey, Piscataway, NJ USA
5Rutgers Cancer Institute of New Jersey, Robert Wood Johnson Medical School, Rutgers, The State University of New Jersey, New Brunswick, NJ USA
John D. Westbrook
1Institute for Quantitative Biomedicine, Rutgers, The State University of New Jersey, Piscataway, NJ USA
3Research Collaboratory for Structural Bioinformatics Protein Data Bank, Rutgers, The State University of New Jersey, Piscataway, NJ USA
5Rutgers Cancer Institute of New Jersey, Robert Wood Johnson Medical School, Rutgers, The State University of New Jersey, New Brunswick, NJ USA
Brian P. Hudson
1Institute for Quantitative Biomedicine, Rutgers, The State University of New Jersey, Piscataway, NJ USA
3Research Collaboratory for Structural Bioinformatics Protein Data Bank, Rutgers, The State University of New Jersey, Piscataway, NJ USA
David S. Goodsell
1Institute for Quantitative Biomedicine, Rutgers, The State University of New Jersey, Piscataway, NJ USA
3Research Collaboratory for Structural Bioinformatics Protein Data Bank, Rutgers, The State University of New Jersey, Piscataway, NJ USA
4The Scripps Research Institute, La Jolla, CA USA
5Rutgers Cancer Institute of New Jersey, Robert Wood Johnson Medical School, Rutgers, The State University of New Jersey, New Brunswick, NJ USA
Jonathan K. Williams
2Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ USA
Maria Voigt
1Institute for Quantitative Biomedicine, Rutgers, The State University of New Jersey, Piscataway, NJ USA
3Research Collaboratory for Structural Bioinformatics Protein Data Bank, Rutgers, The State University of New Jersey, Piscataway, NJ USA
Vidur Sarma
1Institute for Quantitative Biomedicine, Rutgers, The State University of New Jersey, Piscataway, NJ USA
Lingjun Xie
1Institute for Quantitative Biomedicine, Rutgers, The State University of New Jersey, Piscataway, NJ USA
2Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ USA
Thejasvi Venkatachalam
1Institute for Quantitative Biomedicine, Rutgers, The State University of New Jersey, Piscataway, NJ USA
Steven Arnold
1Institute for Quantitative Biomedicine, Rutgers, The State University of New Jersey, Piscataway, NJ USA
Luz Helena Alfaro Alvarado
6Grinnell College, Grinnell, IA USA
Kevin Catalfano
7University of Notre Dame, Notre Dame, IN USA
Aaliyah Khan
8University of Maryland Baltimore County Baltimore, MD USA
Erika McCarthy
9Stevens Institute of Technology, Hoboken, NJ USA
Sophia Staggers
10Frostburg State University, Frostburg, MD USA
Brea Tinsley
11Youngstown State University, Youngstown, OH USA
Alan Trudeau
12University of Central Florida, Orlando, FL USA
Jitendra Singh
13New York City College of Technology, Brooklyn, NY USA
Lindsey Whitmore
14Howard University, Washington, DC USA
Helen Zheng
15Watchung Hills Regional High School, Warren, NJ USA
Matthew Benedek
16Xavier University, Cincinnati, OH USA
Jenna Currier
17Hope College, Holland, MI USA
Mark Dresel
3Research Collaboratory for Structural Bioinformatics Protein Data Bank, Rutgers, The State University of New Jersey, Piscataway, NJ USA
Ashish Duvvuru
17Hope College, Holland, MI USA
Britney Dyszel
18Ursinus College, Collegeville, PA USA
Emily Fingar
19SUNY Oswego, Oswego, NY USA
Elizabeth M. Hennen
20Roger Williams University, Bristol, RI USA
Michael Kirsch
19SUNY Oswego, Oswego, NY USA
Ali A. Khan
19SUNY Oswego, Oswego, NY USA
Charlotte Labrie-Cleary
19SUNY Oswego, Oswego, NY USA
Stephanie Laporte
21Brandeis University, Waltham, MA USA
Evan Lenkeit
3Research Collaboratory for Structural Bioinformatics Protein Data Bank, Rutgers, The State University of New Jersey, Piscataway, NJ USA
Kailey Martin
18Ursinus College, Collegeville, PA USA
Marilyn Orellana
17Hope College, Holland, MI USA
Melanie Ortiz-Alvarez de la Campa
22University of Puerto Rico-Rio Piedras, San Juan, Puerto Rico
Isaac Paredes
23John Jay College, New York, NY USA
Baleigh Wheeler
24Grand View University, Des Moines, IA USA
Allison Rupert
24Grand View University, Des Moines, IA USA
Andrew Sam
3Research Collaboratory for Structural Bioinformatics Protein Data Bank, Rutgers, The State University of New Jersey, Piscataway, NJ USA
Katherine See
25Rochester Institute of Technology, Rochester, NY USA
Santiago Soto Zapata
19SUNY Oswego, Oswego, NY USA
Paul A. Craig
25Rochester Institute of Technology, Rochester, NY USA
Bonnie L. Hall
24Grand View University, Des Moines, IA USA
Jennifer Jiang
1Institute for Quantitative Biomedicine, Rutgers, The State University of New Jersey, Piscataway, NJ USA
Julia R. Koeppe
19SUNY Oswego, Oswego, NY USA
Stephen A. Mills
16Xavier University, Cincinnati, OH USA
Michael J. Pikaart
17Hope College, Holland, MI USA
Rebecca Roberts
18Ursinus College, Collegeville, PA USA
Yana Bromberg
26Department of Biochemistry and Microbiology, Rutgers, The State University of New Jersey, New Brunswick, NJ USA
J. Steen Hoyer
27Department of Ecology, Evolution and Natural Resources, School of Environmental and Biological Sciences, Rutgers, The State University of New Jersey, New Brunswick, NJ USA
Siobain Duffy
27Department of Ecology, Evolution and Natural Resources, School of Environmental and Biological Sciences, Rutgers, The State University of New Jersey, New Brunswick, NJ USA
Jay Tischfield
28Department of Genetics, Rutgers, The State University of New Jersey, and Human Genetics Institute of New Jersey, Piscataway, NJ
Francesc X. Ruiz
29Center for Advanced Biotechnology and Medicine, Rutgers, The State University of New Jersey, Piscataway, NJ USA
Eddy Arnold
29Center for Advanced Biotechnology and Medicine, Rutgers, The State University of New Jersey, Piscataway, NJ USA
Jean Baum
2Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ USA
Jesse Sandberg
30Center for Computational and Integrative Biology, Rutgers, The State University of New Jersey, Camden, NJ USA
Grace Brannigan
30Center for Computational and Integrative Biology, Rutgers, The State University of New Jersey, Camden, NJ USA
31Department of Physics, Rutgers, The State University of New Jersey, Camden, NJ USA
Sagar D. Khare
1Institute for Quantitative Biomedicine, Rutgers, The State University of New Jersey, Piscataway, NJ USA
2Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ USA
5Rutgers Cancer Institute of New Jersey, Robert Wood Johnson Medical School, Rutgers, The State University of New Jersey, New Brunswick, NJ USA
Stephen K. Burley
1Institute for Quantitative Biomedicine, Rutgers, The State University of New Jersey, Piscataway, NJ USA
2Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, NJ USA
3Research Collaboratory for Structural Bioinformatics Protein Data Bank, Rutgers, The State University of New Jersey, Piscataway, NJ USA
5Rutgers Cancer Institute of New Jersey, Robert Wood Johnson Medical School, Rutgers, The State University of New Jersey, New Brunswick, NJ USA
32Research Collaboratory for Structural Bioinformatics Protein Data Bank, San Diego Supercomputer Center, University of California, San Diego, La Jolla, CA USA
33Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California, San Diego, La Jolla, CA USA
Posted December 01, 2020.
Evolution of the SARS-CoV-2 proteome in three dimensions (3D) during the first six months of the COVID-19 pandemic
Joseph H. Lubin, Christine Zardecki, Elliott M. Dolan, Changpeng Lu, Zhuofan Shen, Shuchismita Dutta, John D. Westbrook, Brian P. Hudson, David S. Goodsell, Jonathan K. Williams, Maria Voigt, Vidur Sarma, Lingjun Xie, Thejasvi Venkatachalam, Steven Arnold, Luz Helena Alfaro Alvarado, Kevin Catalfano, Aaliyah Khan, Erika McCarthy, Sophia Staggers, Brea Tinsley, Alan Trudeau, Jitendra Singh, Lindsey Whitmore, Helen Zheng, Matthew Benedek, Jenna Currier, Mark Dresel, Ashish Duvvuru, Britney Dyszel, Emily Fingar, Elizabeth M. Hennen, Michael Kirsch, Ali A. Khan, Charlotte Labrie-Cleary, Stephanie Laporte, Evan Lenkeit, Kailey Martin, Marilyn Orellana, Melanie Ortiz-Alvarez de la Campa, Isaac Paredes, Baleigh Wheeler, Allison Rupert, Andrew Sam, Katherine See, Santiago Soto Zapata, Paul A. Craig, Bonnie L. Hall, Jennifer Jiang, Julia R. Koeppe, Stephen A. Mills, Michael J. Pikaart, Rebecca Roberts, Yana Bromberg, J. Steen Hoyer, Siobain Duffy, Jay Tischfield, Francesc X. Ruiz, Eddy Arnold, Jean Baum, Jesse Sandberg, Grace Brannigan, Sagar D. Khare, Stephen K. Burley
bioRxiv 2020.12.01.406637; doi: https://doi.org/10.1101/2020.12.01.406637
Evolution of the SARS-CoV-2 proteome in three dimensions (3D) during the first six months of the COVID-19 pandemic
Joseph H. Lubin, Christine Zardecki, Elliott M. Dolan, Changpeng Lu, Zhuofan Shen, Shuchismita Dutta, John D. Westbrook, Brian P. Hudson, David S. Goodsell, Jonathan K. Williams, Maria Voigt, Vidur Sarma, Lingjun Xie, Thejasvi Venkatachalam, Steven Arnold, Luz Helena Alfaro Alvarado, Kevin Catalfano, Aaliyah Khan, Erika McCarthy, Sophia Staggers, Brea Tinsley, Alan Trudeau, Jitendra Singh, Lindsey Whitmore, Helen Zheng, Matthew Benedek, Jenna Currier, Mark Dresel, Ashish Duvvuru, Britney Dyszel, Emily Fingar, Elizabeth M. Hennen, Michael Kirsch, Ali A. Khan, Charlotte Labrie-Cleary, Stephanie Laporte, Evan Lenkeit, Kailey Martin, Marilyn Orellana, Melanie Ortiz-Alvarez de la Campa, Isaac Paredes, Baleigh Wheeler, Allison Rupert, Andrew Sam, Katherine See, Santiago Soto Zapata, Paul A. Craig, Bonnie L. Hall, Jennifer Jiang, Julia R. Koeppe, Stephen A. Mills, Michael J. Pikaart, Rebecca Roberts, Yana Bromberg, J. Steen Hoyer, Siobain Duffy, Jay Tischfield, Francesc X. Ruiz, Eddy Arnold, Jean Baum, Jesse Sandberg, Grace Brannigan, Sagar D. Khare, Stephen K. Burley
bioRxiv 2020.12.01.406637; doi: https://doi.org/10.1101/2020.12.01.406637
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