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 MJournal: medRxivPMID: 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 epidemic after social and economic reopening in three US states reveals shifts in age structure and clinical characteristics.

Author(s): Wikle NB, Tran TN, Gentilesco B, Leighow SM, Albert E, Strong ER, Břinda K, Inam H, Yang F, Hossain S, Chan P, Hanage WP, Messick M, Pritchard JR, Hanks E, Boni MFJournal: medRxivPMID: 34426816 August 2021
In the United States, state-level re-openings in spring 2020 presented an opportunity for the resurgence of SARS-CoV-2 transmission. One important…

Combining genomics and epidemiology to track mumps virus transmission in the United States.

Author(s): Wohl S, Metsky HC, Schaffner SF, Piantadosi A, Burns M, Lewnard JA, Chak B, Krasilnikova LA, Siddle KJ, Matranga CB, Bankamp B, Hennigan S, Sabina B, Byrne EH, McNall RJ, Shah RR, Qu J, Park DJ, Gharib S, Fitzgerald S, Barreira P, Fleming S, Lett S, Rota PA, Madoff LC, Yozwiak NL, MacInnis BL, Smole S, Grad YH, Sabeti PCJournal: PLoS BiolPMID: 32045407 February 2020
Unusually large outbreaks of mumps across the United States in 2016 and 2017 raised questions about the extent of mumps…

Mapping imported malaria in Bangladesh using parasite genetic and human mobility data.

Author(s): Chang HH, Wesolowski A, Sinha I, Jacob CG, Mahmud A, Uddin D, Zaman SI, Hossain MA, Faiz MA, Ghose A, Sayeed AA, Rahman MR, Islam A, Karim MJ, Rezwan MK, Shamsuzzaman AKM, Jhora ST, Aktaruzzaman MM, Drury E, Gonçalves S, Kekre M, Dhorda M, Vongpromek R, Miotto O, Engø-Monsen K, Kwiatkowski D, Maude RJ, Buckee CJournal: ElifePMID: 30938289 August 2019
For countries aiming for malaria elimination, travel of infected individuals between endemic areas undermines local interventions. Quantifying parasite importation has…