S
Siobain Duffy
Researcher at Rutgers University
Publications - 85
Citations - 5664
Siobain Duffy is an academic researcher from Rutgers University. The author has contributed to research in topics: Begomovirus & Genome. The author has an hindex of 31, co-authored 78 publications receiving 4853 citations. Previous affiliations of Siobain Duffy include Pennsylvania State University & Yale University.
Papers
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Book ChapterDOI
Bacteriophage Ecology: Evolutionary ecology of multiple phage adsorption and infection
Paul E. Turner,Siobain Duffy +1 more
Journal ArticleDOI
Evolution of the SARS-CoV-2 proteome in three dimensions (3D) during the first 6 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 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 A. Tischfield,Francesc X. Ruiz,Eddy Arnold,Jean Baum,Jesse Sandberg,Grace Brannigan,Sagar D. Khare,Stephen K. Burley +63 more
TL;DR: In this article, three-dimensional structures of SARS-CoV-2 proteins and those of other coronavirusess archived in the Protein Data Bank were used to analyze viral proteome evolution during the first 6 months of the COVID-19 pandemic.
Journal ArticleDOI
Bioinformatic analysis reveals genome size reduction and the emergence of tyrosine phosphorylation site in the movement protein of New World bipartite begomoviruses.
TL;DR: Genomes of the New World viruses are smaller than the Old World counterparts, possibly compensating for the loss of the intercellular movement functions of PCP, and substantial purifying selection on a portion of theNew World DNA-B movement protein is detected.
Posted ContentDOI
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 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 A. Tischfield,Francesc X. Ruiz,Eddy Arnold,Jean Baum,Jesse Sandberg,Grace Brannigan,Sagar D. Khare,Stephen K. Burley +63 more
TL;DR: Three-dimensional structures of SARS-CoV-2 and other coronaviral proteins archived in the Protein Data Bank were used to analyze viral proteome evolution during the first six months of the COVID-19 pandemic, highlighting substitutions with the potential to impact protein structure, enzyme activity, and functional interfaces.