| 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 | 251 | 2017 |
| 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 | 119 | 2020 |
| West African Anopheles gambiae mosquitoes harbor a taxonomically diverse virome including new insect-specific flaviviruses, mononegaviruses, and totiviruses JR Fauver, ND Grubaugh, BJ Krajacich, J Weger-Lucarelli, SM Lakin, ... Virology 498, 288-299, 2016 | 94 | 2016 |
| 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 | 45 | 2017 |
| 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 | 43 | 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 | 39 | 2018 |
| Horizontal Gene Transfer and Acquired Antibiotic Resistance in Salmonella enterica Serovar Heidelberg following In Vitro Incubation in Broiler Ceca A Oladeinde, K Cook, SM Lakin, R Woyda, Z Abdo, T Looft, K Herrington, ... Applied and environmental microbiology 85 (22), e01903-19, 2019 | 34 | 2019 |
| Effects of a Saccharomyces cerevisiae fermentation product on liver abscesses, fecal microbiome, and resistome in feedlot cattle raised without antibiotics KL Huebner, JN Martin, CJ Weissend, KL Holzer, JK Parker, SM Lakin, ... Scientific reports 9 (1), 1-11, 2019 | 32 | 2019 |
| Comparative diversity of microbiomes and Resistomes in beef feedlots, downstream environments and urban sewage influent R Zaheer, SM Lakin, RO Polo, SR Cook, FJ Larney, PS Morley, ... BMC microbiology 19 (1), 1-17, 2019 | 21 | 2019 |
| Reused poultry litter microbiome with competitive exclusion potential against Salmonella Heidelberg MG Bucher, B Zwirzitz, A Oladeinde, K Cook, C Plymel, G Zock, S Lakin, ... Journal of Environmental Quality 49 (4), 869-881, 2020 | 16 | 2020 |
| 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 | 16 | 2019 |
| Horizontal Gene Transfer Is the Main Driver of Antimicrobial Resistance in Broiler Chicks Infected with Salmonella Enterica Serovar Heidelberg A Oladeinde, Z Abdo, MO Press, K Cook, NA Cox, B Zwirzitz, R Woyda, ... Msystems 6 (4), e00729-21, 2021 | 8 | 2021 |
| Hierarchical hidden Markov models enable accurate and diverse detection of antimicrobial resistance sequences. Commun Biol 2: 294 SM Lakin, A Kuhnle, B Alipanahi, NR Noyes, C Dean, M Muggli, ... | 7 | 2019 |
| Enrichment allows identification of diverse, rare elements in metagenomic resistome-virulome sequencing. Microbiome 5: 142 NR Noyes, ME Weinroth, JK Parker, CJ Dean, SM Lakin, RA Raymond, ... | 6 | 2017 |
| II, Dabiré KR, Foy BD, Brackney DE, Ebel GD, Stenglein MD (2016) West African Anopheles gambiae mosquitoes harbor a taxonomically diverse virome including new insect-specific … JR Fauver, ND Grubaugh, BJ Krajacich, J Weger-Lucarelli, SM Lakin, ... Virology 498, 288-299, 0 | 6 | |
| Investigating effects of tulathromycin metaphylaxis on the fecal resistome and microbiome of commercial feedlot cattle early in the feeding period. Front Microbiol 9: 1715 E Doster, P Rovira, NR Noyes, BA Burgess, X Yang, MD Weinroth, ... | 5 | 2018 |
| Characterization of the microbial resistome in conventional and “raised without antibiotics” beef and dairy production systems. Front. Microbiol. 10: 1980 P Rovira, T McAllister, SM Lakin, SR Cook, E Doster, NR Noyes, ... | 5 | 1980 |
| Tychus: a whole genome sequencing pipeline for assembly, annotation and phylogenetics of bacterial genomes C Dean, N Noyes, S Lakin, P Rovira-Sanz, X Yang, K Belk, PS Morley, ... bioRxiv, 283101, 2018 | 2 | 2018 |
| Erratum for Oladeinde et al.,“Horizontal Gene Transfer Is the Main Driver of Antimicrobial Resistance in Broiler Chicks Infected with Salmonella enterica Serovar Heidelberg” A Oladeinde, Z Abdo, MO Press, K Cook, NA Cox, B Zwirzitz, R Woyda, ... Msystems 6 (5), e01147-21, 2021 | 1 | 2021 |
| Gene flux and acid-imposed selection are the main drivers of antimicrobial resistance in broiler chicks infected with Salmonella enterica serovar Heidelberg A Oladeinde, Z Abdo, MO Press, K Cook, NA Cox, B Zwirzitz, R Woyda, ... bioRxiv, 2021 | 1 | 2021 |
