| 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 | 335 | 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 | 304 | 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, 1-13, 2017 | 72 | 2017 |
| 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 | 59 | 2018 |
| Considerations and best practices in animal science 16S ribosomal RNA gene sequencing microbiome studies MD Weinroth, AD Belk, C Dean, N Noyes, DK Dittoe, MJ Rothrock Jr, ... Journal of animal science 100 (2), skab346, 2022 | 57 | 2022 |
| Mobilization of antibiotic resistance: are current approaches for colocalizing resistomes and mobilomes useful? IB Slizovskiy, K Mukherjee, CJ Dean, C Boucher, NR Noyes Frontiers in microbiology 11, 1376, 2020 | 40 | 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), 294, 2019 | 30 | 2019 |
| Investigating the cow skin and teat canal microbiomes of the bovine udder using different sampling and sequencing approaches CJ Dean, IB Slizovskiy, KK Crone, AX Pfennig, BJ Heins, LS Caixeta, ... Journal of Dairy Science 104 (1), 644-661, 2021 | 27 | 2021 |
| The microbiome of common bedding materials before and after use on commercial dairy farms T Ray, TN Gaire, CJ Dean, S Rowe, SM Godden, NR Noyes Animal Microbiome 4 (1), 18, 2022 | 11 | 2022 |
| 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, ... | 10 | 2017 |
| 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, ... | 9 | 2019 |
| Investigation of intramammary infections in primiparous cows during early lactation on organic dairy farms F Peña-Mosca, C Dean, V Machado, L Fernandes, P Pinedo, E Doster, ... Journal of Dairy Science 106 (12), 9377-9392, 2023 | 6 | 2023 |
| Evaluation of contamination in milk samples pooled from independently collected quarters within a laboratory setting CJ Dean, F Peña-Mosca, T Ray, BJ Heins, VS Machado, PJ Pinedo, ... Frontiers in Veterinary Science 9, 818778, 2022 | 6 | 2022 |
| 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, RN Noyes, BA Burgess, X Yang, MD Weinroth, ... | 6 | 2018 |
| E Belk, K.; Noyes, NR; Morley, PS 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 Nucleic Acids Res 48, D561-D569, 2020 | 5 | 2020 |
| 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 | 3 | 2018 |
| Associations between early lactation intramammary infections and udder health and performance during the first 180 days in milk in first-lactation organic dairy cows F Peña-Mosca, C Dean, L Fernandes, E Doster, K Sharpe, T Ray, ... Journal of Dairy Science 107 (4), 2426-2443, 2024 | 2 | 2024 |
| The impact of kit, environment, and sampling contamination on the observed microbiome of bovine milk CJ Dean, Y Deng, TC Wehri, F Pena-Mosca, T Ray, BA Crooker, ... Msystems, e01158-23, 2024 | 1 | 2024 |
| PTPN11variants in chronic myelomonocytic leukemia: Phenotypic and prognostic correlates. AA Natu, CM Csizmar, M Gurney, TL Lasho, C Finke, C Dean, ... Journal of Clinical Oncology 42 (16_suppl), 6513-6513, 2024 | | 2024 |
| Exploring associations between the teat apex metagenome and Staphylococcus aureus intramammary infections in primiparous cows under organic directives CJ Dean, F Peña-Mosca, T Ray, TJ Wehri, K Sharpe, AM Antunes Jr, ... Applied and environmental microbiology 90 (4), e02234-23, 2024 | | 2024 |
