Publications

Variant abundance estimation for SARS-CoV-2 in wastewater using RNA-Seq quantification.

Author(s): Baaijens JA, Zulli A, Ott IM, Petrone ME, Alpert T, Fauver JR, Kalinich CC, Vogels CBF, Breban MI, Duvallet C, McElroy K, Ghaeli N, Imakaev M, Mckenzie-Bennett M, Robison K, Plocik A, Schilling R, Pierson M, Littlefield R, Spencer M, Simen BB, Yale SARS-CoV-2 Genomic Surveillance Initiative., Hanage WP, Grubaugh ND, Peccia J, Baym M|Journal: medRxiv|PMID: 34494031| September 2021

Effectively monitoring the spread of SARS-CoV-2 variants is essential to efforts to counter the ongoing pandemic. Wastewater monitoring of SARS-CoV-2…

SARS-CoV-2 Reinfection: A Case Series from a 12-Month Longitudinal Occupational Cohort.

Author(s): Mack CD, Tai C, Sikka R, Grad YH, Maragakis LL, Grubaugh ND, Anderson DJ, Ho D, Merson M, Samant RM, Fauver JR, Barrett J, Sims L, DiFiori J|Journal: Clin Infect Dis|PMID: 34453431| August 2021

Seven cases of COVID-19 SARS-CoV-2 reinfection from the NBA 2020-2021 occupational testing cohort are described including clinical details, antibody test…

Viral dynamics of acute SARS-CoV-2 infection and applications to diagnostic and public health strategies.

Author(s): Kissler SM, Fauver JR, Mack C, Olesen SW, Tai C, Shiue KY, Kalinich CC, Jednak S, Ott IM, Vogels CBF, Wohlgemuth J, Weisberger J, DiFiori J, Anderson DJ, Mancell J, Ho DD, Grubaugh ND, Grad YH|Journal: PLoS Biol|PMID: 34252080| July 2021

SARS-CoV-2 infections are characterized by viral proliferation and clearance phases and can be followed by low-level persistent viral RNA shedding.…

Combining genomic and epidemiological data to compare the transmissibility of SARS-CoV-2 lineages.

Author(s): Petrone ME, Rothman JE, Breban MI, Ott IM, Russell A, Lasek-Nesselquist E, Kelly K, Omerza G, Renzette N, Watkins AE, Kalinich CC, Alpert T, Brito AF, Earnest R, Tikhonova IR, Castaldi C, Kelly JP, Shudt M, Plitnick J, Schneider E, Murphy S, Neal C, Laszlo E, Altajar A, Pearson C, Muyombwe A, Downing R, Razeq J, Niccolai L, Wilson MS, Anderson ML, Wang J, Liu C, Hui P, Mane S, Taylor BP, Hanage WP, Landry ML, Peaper DR, Bilguvar K, Fauver JR, Vogels CBF, Gardner LM, Pitzer VE, George KS, Adams MD, Grubaugh ND|Journal: medRxiv|PMID: 34230938| July 2021

Emerging SARS-CoV-2 variants have shaped the second year of the COVID-19 pandemic and the public health discourse around effective control…

Densely sampled viral trajectories suggest longer duration of acute infection with B.1.1.7 variant relative to non-B.1.1.7 SARS-CoV-2

Author(s): Kissler SM, Fauver JR, Mack C, Tai C, Breban M, Watkins AE, Samant R, Anderson D, Ho D, Grubaugh ND, Grad Y|Journal: medRxiv| July 2021

To test whether acute infection with B.1.1.7 is associated with higher or more sustained nasopharyngeal viral concentrations, we assessed longitudinal…

Viral dynamics of acute SARS-CoV-2 infection

Author(s): Kissler SM, Fauver JR, Mack C, Olesen SW, Tai C, Shiue KY, Kalinich C, Jednak S, Ott I, Vogels C, Wohlgemuth J, Weisberger J, DiFiori J, Anderson DJ, Mancell J, Ho D, Grubaugh ND, Grad YH|Journal: medRxiv| June 2021

SARS-CoV-2 infections are characterized by viral proliferation and clearance phases and can be followed by low-level viral RNA shedding. The…

Making Sense of Mutation: What D614G Means for the COVID-19 Pandemic Remains Unclear.

Author(s): Grubaugh ND, Hanage WP, Rasmussen AL|Journal: Cell|PMID: 32697970| July 2020

In this issue of Cell, Korber et al. found that a SARS-CoV-2 variant in the spike protein D614G rapidly became dominant…