Publications – Center for Communicable Disease Dynamics

Inferring bacterial transmission dynamics using deep sequencing genomic surveillance data.

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: Nat CommunPMID: 37907520 October 2023

Identifying and interrupting transmission chains is important for controlling infectious diseases. One way to identify transmission pairs - two hosts…

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…

Widespread sharing of pneumococcal strains in a rural African setting: proximate villages are more likely to share similar strains that are carried at multiple timepoints.

Author(s): Senghore M, Chaguza C, Bojang E, Tientcheu PE, Bancroft RE, Lo SW, Gladstone RA, McGee L, Worwui A, Foster-Nyarko E, Ceesay F, Okoi CB, Klugman KP, Breiman RF, Bentley SD, Adegbola R, Antonio M, Hanage WP, Kwambana-Adams BAJournal: Microb GenomPMID: 35119356 February 2022

The transmission dynamics of in sub-Saharan Africa are poorly understood due to a lack of adequate epidemiological and genomic data.…

Using viral load and epidemic dynamics to optimize pooled testing in resource-constrained settings.

Author(s): Cleary B, Hay JA, Blumenstiel B, Harden M, Cipicchio M, Bezney J, Simonton B, Hong D, Senghore M, Sesay AK, Gabriel S, Regev A, Mina MJJournal: Sci Transl MedPMID: 33619080 April 2021

Virological testing is central to severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) containment, but many settings face severe limitations on…

Leveraging Africa’s preparedness towards the next phase of the COVID-19 pandemic.

Author(s): Senghore M, Savi MK, Gnangnon B, Hanage WPJournal: Lancet Glob HealthPMID: 32416768 May 2020

The coronavirus disease 2019 (COVID-19) response in many African countries has been swift, progressive, and adaptable, despite resource limitations.1 As…