Computational Methods for Strain-Level Microbial Detection in Colony and Metagenome Sequencing Data

por Anyansi, Christine, Straub, Timothy J., Manson, Abigail L., Earl, Ashlee M., Abeel, Thomas
Publicado 2020

Comparative genomics of Clostridium bolteae and Clostridium clostridioforme reveals species-specific genomic properties and numerous putative antibiotic resistance determinants

por Dehoux, Pierre, Marvaud, Jean Christophe, Abouelleil, Amr, Earl, Ashlee M., Lambert, Thierry, Dauga, Catherine
Publicado 2016

Deciphering drug resistance in Mycobacterium tuberculosis using whole-genome sequencing: progress, promise, and challenges

por Cohen, Keira A., Manson, Abigail L., Desjardins, Christopher A., Abeel, Thomas, Earl, Ashlee M.
Publicado 2019

Establishing the role of the gut microbiota in susceptibility to recurrent urinary tract infections

por Worby, Colin J., Olson, Benjamin S., Dodson, Karen W., Earl, Ashlee M., Hultgren, Scott J.
Publicado 2022

The Role of Mobile Genetic Elements in Virulence Factor Carriage from Symptomatic and Asymptomatic Cases of Escherichia coli Bacteriuria

por Morales, Grace, Abelson, Benjamin, Reasoner, Seth, Miller, Jordan, Earl, Ashlee M., Hadjifrangiskou, Maria, Schmitz, Jonathan
Publicado 2023

Whole-Transcriptome and -Genome Analysis of Extensively Drug-Resistant Mycobacterium tuberculosis Clinical Isolates Identifies Downregulation of ethA as a Mechanism of Ethionamide...

por de Welzen, Lynne, Eldholm, Vegard, Maharaj, Kashmeel, Manson, Abigail L., Earl, Ashlee M., Pym, Alexander S.
Publicado 2017

Genomic epidemiology and antibiotic susceptibility profiling of uropathogenic Escherichia coli among children in the United States

por Salamzade, Rauf, McElheny, Christi L., Manson, Abigail L., Earl, Ashlee M., Shaikh, Nader, Doi, Yohei
Publicado 2023

Evidence of Extensive DNA Transfer between Bacteroidales Species within the Human Gut

por Coyne, Michael J., Zitomersky, Naamah Levy, McGuire, Abigail Manson, Earl, Ashlee M., Comstock, Laurie E.
Publicado 2014

ProphET, prophage estimation tool: A stand-alone prophage sequence prediction tool with self-updating reference database

por Reis-Cunha, João L., Bartholomeu, Daniella C., Manson, Abigail L., Earl, Ashlee M., Cerqueira, Gustavo C.
Publicado 2019

Genes Contributing to the Unique Biology and Intrinsic Antibiotic Resistance of Enterococcus faecalis

por Gilmore, Michael S., Salamzade, Rauf, Selleck, Elizabeth, Bryan, Noelle, Mello, Suelen S., Manson, Abigail L., Earl, Ashlee M.
Publicado 2020

High-Quality Draft Genome Sequence of Vagococcus lutrae Strain LBD1, Isolated from the Largemouth Bass Micropterus salmoides

por Lebreton, François, Valentino, Michael D., Duncan, Lucile B., Zeng, Qiandong, Manson Mcguire, Abigail, Earl, Ashlee M., Gilmore, Michael S.
Publicado 2013

Draft Genome Sequences of Six Enterohepatic Helicobacter Species Isolated from Humans and One from Rhesus Macaques

por Shen, Zeli, Sheh, Alexander, Young, Sarah K., Abouelliel, Amr, Ward, Doyle V., Earl, Ashlee M., Fox, James G.
Publicado 2014

Key Transitions in the Evolution of Rapid and Slow Growing Mycobacteria Identified by Comparative Genomics

por Bachmann, Nathan L., Salamzade, Rauf, Manson, Abigail L., Whittington, Richard, Sintchenko, Vitali, Earl, Ashlee M., Marais, Ben J.
Publicado 2020

QuantTB – a method to classify mixed Mycobacterium tuberculosis infections within whole genome sequencing data

por Anyansi, Christine, Keo, Arlin, Walker, Bruce J., Straub, Timothy J., Manson, Abigail L., Earl, Ashlee M., Abeel, Thomas
Publicado 2020

zol & fai: large-scale targeted detection and evolutionary investigation of gene clusters

por Salamzade, Rauf, Tran, Patricia, Martin, Cody, Manson, Abigail L., Gilmore, Michael S., Earl, Ashlee M., Anantharaman, Karthik, Kalan, Lindsay R.
Publicado 2023

Correction: Preserving Genome Integrity: The DdrA Protein of Deinococcus radiodurans R1

por Harris, Dennis R, Tanaka, Masashi, Saveliev, Sergei V, Jolivet, Edmond, Earl, Ashlee M, Cox, Michael M, Battista, John R
Publicado 2006

Preserving Genome Integrity: The DdrA Protein of Deinococcus radiodurans R1

por Harris, Dennis R, Tanaka, Masashi, Saveliev, Sergei V, Jolivet, Edmond, Earl, Ashlee M, Cox, Michael M, Battista, John R
Publicado 2004

The carbapenem inoculum effect provides insight into the molecular mechanisms underlying carbapenem resistance in Enterobacterales

por Cartagena, Alexis Jaramillo, Taylor, Kyra L., Smith, Joshua T., Manson, Abigail L., Pierce, Virginia M., Earl, Ashlee M., Bhattacharyya, Roby P.
Publicado 2023

Modulating the evolutionary trajectory of tolerance using antibiotics with different metabolic dependencies

por Zheng, Erica J., Andrews, Ian W., Grote, Alexandra T., Manson, Abigail L., Alcantar, Miguel A., Earl, Ashlee M., Collins, James J.
Publicado 2022

Benchmarking AlphaFold‐enabled molecular docking predictions for antibiotic discovery

por Wong, Felix, Krishnan, Aarti, Zheng, Erica J, Stärk, Hannes, Manson, Abigail L, Earl, Ashlee M, Jaakkola, Tommi, Collins, James J
Publicado 2022