| 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 | 366 | 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 | 363 | 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 | 78 | 2017 |
| 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 | 77 | 2022 |
| 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 | 65 | 2018 |
| 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 | 48 | 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 | 37 | 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 | 32 | 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 | 15 | 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, ... | 13 | 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 | 7 | 2023 |
| 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, ... | 7 | 2018 |
| 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 | 6 | 2024 |
| 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 |
| 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 | 6 | 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 | 4 | 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 |
| ASXL1/TET2 Genotype-Based Risk Stratification Outperforms ASXL1 Mutational Impact and Is Independent of Mutant Variant Allele Fractions (VAF) in CMML CM Csizmar, M Gurney, R Kanagal-Shamanna, KS Chien, DE Hammond, ... Blood 142, 4615, 2023 | 1 | 2023 |
| THE TEAT SKIN MICROBIOTA OF ORGANIC PRIMIPAROUS DAIRY COWS IS DYNAMIC DURING THE TRANSITION PERIOD CJ Dean, T Ray, F Peña-Mosca, TJ Wehri, K Sharpe, AM Antunes Jr, ... Preventive Veterinary Medicine, 106402, 2024 | | 2024 |
