|MEGARes: an antimicrobial resistance database for high throughput sequencing|
SM Lakin, C Dean, NR Noyes, A Dettenwanger, AS Ross, E Doster, ...
Nucleic acids research 45 (D1), D574-D580, 2017
|Use of metagenomic shotgun sequencing technology to detect foodborne pathogens within the microbiome of the beef production chain|
X Yang, NR Noyes, E Doster, JN Martin, LM Linke, RJ Magnuson, H Yang, ...
Applied and Environmental Microbiology 82 (8), 2433-2443, 2016
|Resistome diversity in cattle and the environment decreases during beef production|
NR Noyes, X Yang, LM Linke, RJ Magnuson, A Dettenwanger, S Cook, ...
Elife 5, e13195, 2016
|Succinct colored de Bruijn graphs|
MD Muggli, A Bowe, NR Noyes, PS Morley, KE Belk, R Raymond, T Gagie, ...
Bioinformatics 33 (20), 3181-3187, 2017
|Characterization of the resistome in manure, soil and wastewater from dairy and beef production systems|
NR Noyes, X Yang, LM Linke, RJ Magnuson, SR Cook, R Zaheer, H Yang, ...
Scientific Reports 6 (1), 1-12, 2016
|Impact of sequencing depth on the characterization of the microbiome and resistome|
R Zaheer, N Noyes, RO Polo, SR Cook, E Marinier, G Van Domselaar, ...
Scientific reports 8 (1), 1-11, 2018
|Mannheimia haemolytica in Feedlot Cattle: Prevalence of Recovery and Associations with Antimicrobial Use, Resistance, and Health Outcomes|
NR Noyes, KM Benedict, SP Gow, CW Booker, SJ Hannon, TA McAllister, ...
Journal of veterinary internal medicine 29 (2), 705-713, 2015
|Associations between sexual habits, menstrual hygiene practices, demographics and the vaginal microbiome as revealed by Bayesian network analysis|
N Noyes, KC Cho, J Ravel, LJ Forney, Z Abdo
PloS one 13 (1), e0191625, 2018
|Antimicrobial Resistance in Escherichia coli Recovered from Feedlot Cattle and Associations with Antimicrobial Use|
KM Benedict, SP Gow, TA McAllister, CW Booker, SJ Hannon, ...
PloS one 10 (12), e0143995, 2015
|MEGARes 2.0: a database for classification of antimicrobial drug, biocide and metal resistance determinants in metagenomic sequence data|
E Doster, SM Lakin, CJ Dean, C Wolfe, JG Young, C Boucher, KE Belk, ...
Nucleic acids research 48 (D1), D561-D569, 2020
|Enrichment allows identification of diverse, rare elements in metagenomic resistome-virulome sequencing|
NR Noyes, ME Weinroth, JK Parker, CJ Dean, SM Lakin, RA Raymond, ...
Microbiome 5 (1), 1-13, 2017
|A comparative study of serum biochemistry, metabolome and microbiome parameters of clinically healthy, normal weight, overweight, and obese companion dogs|
GM Forster, J Stockman, N Noyes, AL Heuberger, CD Broeckling, ...
Topics in companion animal medicine 33 (4), 126-135, 2018
|Characterization of the microbial resistome in conventional and “raised without antibiotics” beef and dairy production systems|
P Rovira, T McAllister, SM Lakin, SR Cook, E Doster, NR Noyes, ...
Frontiers in microbiology 10, 1980, 2019
|Investigating effects of tulathromycin metaphylaxis on the fecal resistome and microbiome of commercial feedlot cattle early in the feeding period|
E Doster, P Rovira, NR Noyes, BA Burgess, X Yang, MD Weinroth, ...
Frontiers in microbiology 9, 1715, 2018
|Effects of ceftiofur and chlortetracycline on the resistomes of feedlot cattle|
MD Weinroth, HM Scott, B Norby, GH Loneragan, NR Noyes, P Rovira, ...
Applied and environmental microbiology 84 (13), 2018
|Rapid Salmonella detection in experimentally inoculated equine faecal and veterinary hospital environmental samples using commercially available lateral flow …|
BA Burgess, NR Noyes, DS Bolte, DR Hyatt, DC Van Metre, PS Morley
Equine veterinary journal 47 (1), 119-122, 2015
|Modelling considerations in the analysis of associations between antimicrobial use and resistance in beef feedlot cattle|
NR Noyes, KM Benedict, SP Gow, CL Waldner, RJ Reid-Smith, ...
Epidemiology & Infection 144 (6), 1313-1329, 2016
|Whole-genome sequencing and concordance between antimicrobial susceptibility genotypes and phenotypes of bacterial isolates associated with bovine respiratory disease|
JR Owen, N Noyes, AE Young, DJ Prince, PC Blanchard, TW Lehenbauer, ...
G3: Genes, Genomes, Genetics 7 (9), 3059-3071, 2017
|Circulation of plasmids harboring resistance genes to quinolones and/or extended-spectrum cephalosporins in multiple Salmonella enterica serotypes from swine in the United States|
E Elnekave, SL Hong, S Lim, SS Hayer, D Boxrud, AJ Taylor, V Lappi, ...
Antimicrobial agents and chemotherapy 63 (4), 2019
|Hierarchical Hidden Markov models enable accurate and diverse detection of antimicrobial resistance sequences|
SM Lakin, A Kuhnle, B Alipanahi, NR Noyes, C Dean, M Muggli, ...
Communications biology 2 (1), 1-11, 2019