| 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 | 457 | 2020 |
| 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 | 416 | 2017 |
| MEGARes and AMR++, v3. 0: an updated comprehensive database of antimicrobial resistance determinants and an improved software pipeline for classification using high-throughput … N Bonin, E Doster, H Worley, LJ Pinnell, JE Bravo, P Ferm, S Marini, ... Nucleic Acids Research 51 (D1), D744-D752, 2023 | 178 | 2023 |
| 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 | 174 | 2016 |
| 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), 24645, 2016 | 163 | 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 | 152 | 2017 |
| 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 | 152 | 2016 |
| Data structures based on k-mers for querying large collections of sequencing data sets C Marchet, C Boucher, SJ Puglisi, P Medvedev, M Salson, R Chikhi Genome Research 31 (1), 1-12, 2021 | 147 | 2021 |
| Prefix-free parsing for building big BWTs C Boucher, T Gagie, A Kuhnle, B Langmead, G Manzini, T Mun Algorithms for Molecular Biology (Special Issue of WABI) 14, 1-15, 2019 | 121 | 2019 |
| Exploring non-touchscreen gestures for smartwatches SS Arefin Shimon, C Lutton, Z Xu, S Morrison-Smith, C Boucher, J Ruiz Proceedings of the Conference on Human Factors in Computing Systems (CHI …, 2016 | 115 | 2016 |
| 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 | 105 | 2019 |
| MONI: a pangenomic index for finding maximal exact matches M Rossi, M Oliva, B Langmead, T Gagie, C Boucher Journal of Computational Biology (Special issue of RECOMB) 29 (2), 169-187, 2022 | 103 | 2022 |
| 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), 142, 2017 | 97 | 2017 |
| The SLOW GROWTH3 Pentatricopeptide Repeat Protein Is Required for the Splicing of Mitochondrial NADH Dehydrogenase Subunit7 Intron 2 in Arabidopsis WY Hsieh, JC Liao, CY Chang, T Harrison, C Boucher, MH Hsieh Plant Physiology 168 (2), 490-501, 2015 | 95 | 2015 |
| Sampling bias and incorrect rooting make phylogenetic network tracing of SARS-COV-2 infections unreliable C Mavian, SK Pond, S Marini, BR Magalis, AM Vandamme, S Dellicour, ... Proceedings of the National Academy of Sciences 117 (23), 12522-12523, 2020 | 92 | 2020 |
| Variable-order de Bruijn graphs C Boucher, A Bowe, T Gagie, SJ Puglisi, K Sadakane Proceedings of the IEEE Data Compression Conference (DCC), 383-392, 2015 | 90 | 2015 |
| SEQuel: improving the accuracy of genome assemblies R Ronen, C Boucher, H Chitsaz, P Pevzner Bioinformatics (Special Issue of ISMB) 28 (12), i188-i196, 2012 | 82 | 2012 |
| Computational graph pangenomics: a tutorial on data structures and their applications JA Baaijens, P Bonizzoni, C Boucher, G Della Vedova, Y Pirola, R Rizzi, ... Natural Computing 21 (1), 81-108, 2022 | 74 | 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 | 70 | 2018 |
| Efficient construction of a complete index for pan-genomics read alignment A Kuhnle, T Mun, C Boucher, T Gagie, B Langmead, G Manzini Journal of Computational Biology (Special Issue of RECOMB) 27 (4), 500-513, 2020 | 69 | 2020 |
Noelle NoyesAssistant Professor, University of MinnesotaVerified email at umn.edu
