Gregory Pepper
University of Washington
22 Papers
110 Citations
Gregory Pepper is an academic researcher from University of Washington. The author has contributed to research in topics: Viral load & Genotyping. The author has an hindex of 10, co-authored 19 publications.
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Papers
Cryptic transmission of SARS-CoV-2 in Washington State.
Trevor Bedford,Trevor Bedford,Alexander L. Greninger,Alexander L. Greninger,Pavitra Roychoudhury,Pavitra Roychoudhury,Lea M. Starita,Michael Famulare,Meei-Li Huang,Arun K. Nalla,Gregory Pepper,Adam Reinhardt,Hong Xie,Lasata Shrestha,Truong N. Nguyen,Amanda L. Adler,Elisabeth Brandstetter,Shari Cho,Danielle Giroux,Peter D Han,Kairsten Fay,Chris D. Frazar,Misja Ilcisin,Kirsten Lacombe,Jover Lee,Anahita Kiavand,Matthew Richardson,Thomas R. Sibley,Melissa Truong,Caitlin R Wolf,Deborah A. Nickerson,Mark J. Rieder,Janet A. Englund,Janet A. Englund,Seattle Flu Study Investigators,James Hadfield,Emma B. Hodcroft,John Huddleston,John Huddleston,Louise H. Moncla,Nicola F. Müller,Richard A. Neher,Xianding Deng,Wei Gu,Scot Federman,Charles Y. Chiu,Jeff Duchin,Jeff Duchin,Romesh Gautom,Geoff Melly,Brian Hiatt,Philip Dykema,Scott Lindquist,Krista Queen,Ying Tao,Anna Uehara,Suxiang Tong,Duncan MacCannell,Gregory L. Armstrong,Geoffrey S. Baird,Helen Y. Chu,Jay Shendure,Jay Shendure,Keith R. Jerome,Keith R. Jerome +64 more
TL;DR: The large majority of SARS-CoV-2 infections sampled during this time frame appeared to have derived from a single introduction event into the state in late January or early February 2020 and subsequent local spread, strongly suggesting cryptic spread of COVID-19 during the months of January and February 2020, before active community surveillance was implemented.
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Rapid and Sensitive Oligonucleotide Ligation Assay for Detection of Mutations in Human Immunodeficiency Virus Type 1 Associated with High-Level Resistance to Protease Inhibitors
Ingrid A. Beck,Madhumita Mahalanabis,Gregory Pepper,Amy Wright,Shannon Hamilton,Erika Langston,Lisa M. Frenkel +6 more
TL;DR: This rapid, simple, economical, and highly sensitive assay provides a practical alternative to dideoxy sequencing for genotypic evaluation of HIV-1 resistance to antiretrovirals.
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Comparison of Oligonucleotide Ligation Assay and Consensus Sequencing for Detection of Drug-Resistant Mutants of Human Immunodeficiency Virus Type 1 in Peripheral Blood Mononuclear Cells and Plasma
Giovanina M. Ellis,Madhumita Mahalanabis,Ingrid A. Beck,Gregory Pepper,Amy Wright,Shannon Hamilton,Sarah Holte,Willscott E. Naugler,Diane M. Pawluk,Chung Chen Li,Lisa M. Frenkel +10 more
TL;DR: Oligonucleotide ligation assay was compared to consensus sequence dideoxynucleotide chain terminator sequencing for detection of 91 drug resistance mutations that had receded below the limit of detection by sequencing of plasma and suggested that the OLA was more sensitive than consensus sequencing in detecting low levels of select drug-resistant mutants.
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SARS-CoV-2 viral load on admission is associated with 30-day mortality
Andrew Bryan,Susan L. Fink,Meghan A Gattuso,Gregory Pepper,Anu Chaudhary,Mark H. Wener,Chihiro Morishima,Keith R. Jerome,Keith R. Jerome,Patrick C. Mathias,Alexander L. Greninger,Alexander L. Greninger +11 more
TL;DR: Viral load on admission was associated with a significantly increased 30-day mortality and anti-SARS-CoV-2 nucleocapisid IgG seropositivity on admission trended toward a reduced 30- day mortality.
Ultrasensitive capture of human herpes simplex virus genomes directly from clinical samples reveals extraordinarily limited evolution in cell culture
Alexander L. Greninger,Pavitra Roychoudhury,Hong Xie,Amanda M. Casto,Anne Cent,Gregory Pepper,David M. Koelle,Meei-Li Huang,Anna Wald,Christine Johnston,Keith R. Jerome +10 more
TL;DR: The development and validation of a DNA oligonucleotide hybridization panel to recover near complete HSV genomes at abundances up to 50,000-fold lower than previously reported and a new computational pipeline for rapid HSV genome assembly and annotation are reported.
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