Publications – Page 2 – Center for Communicable Disease Dynamics

Relationship of political ideology of US federal and state elected officials and key COVID pandemic outcomes following vaccine rollout to adults: April 2021-March 2022.

Author(s): Krieger N, Testa C, Chen JT, Hanage WP, McGregor AJJournal: Lancet Reg Health AmPMID: 36338898 December 2022

Scant research, including in the United States, has quantified relationships between the political ideologies of elected representatives and COVID-19 outcomes…

Monkeypox Virus Infections in Humans.

Author(s): Elsayed S, Bondy L, Hanage WPJournal: Clin Microbiol RevPMID: 36374082 November 2022

Human monkeypox is a viral zoonosis endemic to West and Central Africa that has recently generated increased interest and concern…

Lineage abundance estimation for SARS-CoV-2 in wastewater using transcriptome quantification techniques.

Author(s): Baaijens JA, Zulli A, Ott IM, Nika I, van der Lugt MJ, Petrone ME, Alpert T, Fauver JR, Kalinich CC, Vogels CBF, Breban MI, Duvallet C, McElroy KA, Ghaeli N, Imakaev M, Mckenzie-Bennett MF, Robison K, Plocik A, Schilling R, Pierson M, Littlefield R, Spencer ML, Simen BB, Yale SARS-CoV-2 Genomic Surveillance Initiative., Hanage WP, Grubaugh ND, Peccia J, Baym MJournal: Genome BiolPMID: 36348471 November 2022

Effectively monitoring the spread of SARS-CoV-2 mutants is essential to efforts to counter the ongoing pandemic. Predicting lineage abundance from…

Enterobacteriaceae isolated from patients share antibiotic resistance conferring plasmids recently acquired from those isolated from sinks in the same treatment room

Author(s): Taylor BP, Che Y, Passarelli H, Smollan G, Cohen C, Rapaport R, Tal I, Zade NP, Jaber H, Keller N, Hanage WP, Regev-Yochay GJournal: bioRxiv November 2022

Identifying how and where pathogens acquire antibiotic resistance is crucial to developing effective strategies to limit its spread. Many bacterial…

Beyond consensus sequence: a quantitative scheme for inferring transmission using deep sequencing in a bacterial transmission model

Author(s): Senghore M, Read H, Oza P, Johnson S, Passarelli-Araujo H, Taylor BP, Ashley S, Grey A, Callendrello A, Lee R, Goddard MR, Lumley T, Hanage WP, Wiles SJournal: bioRxiv October 2022

Genomic surveillance provides a data source complementary to contact tracing to resolve putative transmission chains. However, the role of within-host…

Linking contact tracing with genomic surveillance to deconvolute SARS-CoV-2 transmission on a university campus.

Author(s): Turcinovic J, Kuhfeldt K, Sullivan M, Landaverde L, Platt JT, Doucette-Stamm L, Hanage WP, Hamer DH, Klapperich C, Landsberg HE, Connor JHJournal: iSciencePMID: 36246573 October 2022

Contact tracing and genomic data, approaches often used separately, have both been important tools in understanding the nature of SARS-CoV-2…

Causal discovery for the microbiome.

Author(s): Corander J, Hanage WP, Pensar JJournal: Lancet MicrobePMID: 36152674 September 2022

Measurement and manipulation of the microbiome is generally considered to have great potential for understanding the causes of complex diseases…

Understanding early pandemic SARS-CoV-2 transmission in a medical center by incorporating public sequencing databases to mitigate bias.

Author(s): Turcinovic J, Schaeffer B, Taylor BP, Bouton TC, Odom-Mabey AR, Weber SE, Lodi S, Ragan EJ, Connor JH, Jacobson KR, Hanage WPJournal: J Infect DisPMID: 35993116 August 2022

Throughout the SARS-CoV-2 pandemic, healthcare workers (HCWs) have faced risk of infection from within the workplace via patients and staff…

Analyzing the impact of a real-life outbreak simulator on pandemic mitigation: An epidemiological modeling study.

Author(s): Specht I, Sani K, Loftness BC, Hoffman C, Gionet G, Bronson A, Marshall J, Decker C, Bailey L, Siyanbade T, Kemball M, Pickett BE, Hanage WP, Brown T, Sabeti PC, Colubri AJournal: Patterns (N Y)PMID: 36033592 August 2022

An app-based educational outbreak simulator, Operation Outbreak (OO), seeks to engage and educate participants to better respond to outbreaks. Here,…

Early introduction and rise of the Omicron SARS-CoV-2 variant in highly vaccinated university populations.

Author(s): Petros BA, Turcinovic J, Welch NL, White LF, Kolaczyk ED, Bauer MR, Cleary M, Dobbins ST, Doucette-Stamm L, Gore M, Nair P, Nguyen TG, Rose S, Taylor BP, Tsang D, Wendlandt E, Hope M, Platt JT, Jacobson KR, Bouton T, Yune S, Auclair JR, Landaverde L, Klapperich CM, Hamer DH, Hanage WP, MacInnis BL, Sabeti PC, Connor JH, Springer MJournal: Clin Infect DisPMID: 35616119 May 2022

The Omicron variant of SARS-CoV-2 is highly transmissible in vaccinated and unvaccinated populations. The dynamics governing its establishment and propensity…