Author(s): Helekal D, Keeling M, Grad YH|Journal: bioRxiv| December 2022
Increasing levels of antibiotic resistance in many bacterial pathogen populations is a major threat to public health. Resistance to an…
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 G|Journal: bioRxiv| November 2022
Identifying how and where pathogens acquire antibiotic resistance is crucial to developing effective strategies to limit its spread. Many bacterial…
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 S|Journal: bioRxiv| October 2022
Genomic surveillance provides a data source complementary to contact tracing to resolve putative transmission chains. However, the role of within-host…
Author(s): Lang C, Fruth A, Campbell IW, Jenkins C, Smith P, Strockbine N, Weill FX, Nübel U, Grad YH, Waldor MK, Flieger A|Journal: bioRxiv| October 2022
Shiga toxin-producing E. coli (STEC) can give rise to a range of clinical outcomes from diarrhea to the life-threatening systemic…
Author(s): Rubin DH, Ma KC, Westervelt KA, Hullahalli K, Waldor MK, Grad YH|Journal: bioRxiv| February 2022
The evolution of the obligate human pathogen Neisseria gonorrhoeae has been shaped by selective pressures from diverse host niche environments…
Author(s): Carrasquilla M, Early AM, Taylor AR, Knudson A, Echeverry DF, Anderson TJ, Mancilla E, Aponte S, Cárdenas P, Buckee CO, Rayner JC, Sáenz FE, Neafsey DE, Corredor V|Journal: bioRxiv| February 2022
The human malaria parasite Plasmodium falciparum is globally widespread, but its prevalence varies significantly between and even within countries. Most…
Author(s): Mortimer TD, Zhang JJ, Ma KC, Grad YH|Journal: bioRxiv| August 2021
While Neisseria gonorrhoeae poses an urgent public health threat because of increasing antimicrobial resistance, much of the circulating population remains…
Author(s): Nathan A, Asgari S, Ishigaki K, Amariuta T, Luo Y, Beynor JI, Baglaenko Y, Suliman S, Price A, Lecca L, Murray MB, Moody DB, Raychaudhuri S|Journal: bioRxiv| July 2021
Many non-coding genetic variants cause disease by modulating gene expression. However, identifying these expression quantitative trait loci (eQTLs) is complicated…
Author(s): Gamache I, Legault MA, Grenier JC, Sanchez R, Rhéaume E, Asgari S, Barhdadi A, Zada YF, Trochet H, Luo Y, Lecca L, Murray M, Raychaudhuri S, Tardif JC, Dubé MP, Hussin JG|Journal: bioRxiv| May 2021
Pharmacogenomic studies have revealed associations between rs1967309 in the adenylyl cyclase type 9 (ADCY9) gene and clinical responses to the…
Author(s): Reshef YA, Rumker L, Kang JB, Nathan A, Murray MB, Moody DB, Raychaudhuri S|Journal: bioRxiv| April 2021
As single-cell datasets grow in sample size, there is a critical need to characterize cell states that vary across samples…
