| Bioconda: sustainable and comprehensive software distribution for the life sciences B Grüning, R Dale, A Sjödin, BA Chapman, J Rowe, CH Tomkins-Tinch, ... Nature methods 15 (7), 475-476, 2018 | 1037 | 2018 |
| Easy phylotyping of Escherichia coli via the EzClermont web app and command-line tool NR Waters, F Abram, F Brennan, A Holmes, L Pritchard Access Microbiology 2 (9), e000143, 2020 | 95 | 2020 |
| A spectrum of CodY activities drives metabolic reorganization and virulence gene expression in Staphylococcus aureus NR Waters, DJ Samuels, RK Behera, J Livny, KY Rhee, MR Sadykov, ... Molecular microbiology 101 (3), 495-514, 2016 | 92 | 2016 |
| Thermophilic versus mesophilic dark fermentation in xylose-fed fluidised bed reactors: Biohydrogen production and active microbial community P Dessì, E Porca, NR Waters, AM Lakaniemi, G Collins, PNL Lens International Journal of Hydrogen Energy 43 (11), 5473-5485, 2018 | 48 | 2018 |
| Early intestinal microbial features are associated with CD4 T-cell recovery after allogeneic hematopoietic transplant O Miltiadous, NR Waters, H Andrlová, A Dai, CL Nguyen, ... Blood, The Journal of the American Society of Hematology 139 (18), 2758-2769, 2022 | 34 | 2022 |
| Conditioning regimens are associated with distinct patterns of microbiota injury in allogeneic hematopoietic cell transplantation R Shouval, NR Waters, ALC Gomes, C Zuanelli Brambilla, T Fei, ... Clinical Cancer Research 29 (1), 165-173, 2023 | 29 | 2023 |
| The potential for polyphosphate metabolism in Archaea and anaerobic polyphosphate formation in Methanosarcina mazei FS Paula, JP Chin, A Schnürer, B Mueller, P Manesiotis, N Waters, ... Scientific Reports 9 (1), 17101, 2019 | 26 | 2019 |
| High-resolution analyses of associations between medications, microbiome, and mortality in cancer patients CL Nguyen, KA Markey, O Miltiadous, A Dai, N Waters, K Sadeghi, T Fei, ... Cell 186 (12), 2705-2718. e17, 2023 | 24 | 2023 |
| Toward assessing farm-based anaerobic digestate public health risks: comparative investigation with slurry, effect of pasteurization treatments, and use of miniature … S Nolan, NR Waters, F Brennan, A Auer, O Fenton, K Richards, DJ Bolton, ... Frontiers in Sustainable Food Systems 2, 41, 2018 | 20 | 2018 |
| A compilation of fecal microbiome shotgun metagenomics from hematopoietic cell transplantation patients J Yan, C Liao, BP Taylor, E Fontana, LA Amoretti, RJ Wright, ER Littmann, ... Scientific data 9 (1), 219, 2022 | 14 | 2022 |
| riboSeed: leveraging prokaryotic genomic architecture to assemble across ribosomal regions NR Waters, F Abram, F Brennan, A Holmes, L Pritchard Nucleic Acids Research 46 (11), e68-e68, 2018 | 11 | 2018 |
| Easy phylotyping of Escherichia coli via the EzClermont web app and command-line tool. Access Microbiol 2: acmi000143 NR Waters, F Abram, F Brennan, A Holmes, L Pritchard | 9 | 2020 |
| Altered microbial bile acid metabolism exacerbates T cell-driven inflammation during graft-versus-host disease S Lindner, O Miltiadous, RJF Ramos, J Paredes, AI Kousa, A Dai, T Fei, ... Nature Microbiology 9 (3), 614-630, 2024 | 8 | 2024 |
| Tissue-specific features of the T cell repertoire after allogeneic hematopoietic cell transplantation in human and mouse S DeWolf, Y Elhanati, K Nichols, NR Waters, CL Nguyen, JB Slingerland, ... Science translational medicine 15 (706), eabq0476, 2023 | 7 | 2023 |
| Mitigation of gastrointestinal graft-versus-host disease with tocilizumab prophylaxis is accompanied by preservation of microbial diversity and attenuation of enterococcal … S Chhabra, A Szabo, A Clurman, K McShane, N Waters, D Eastwood, ... Haematologica 108 (1), 250, 2023 | 6 | 2023 |
| Chordomics: a visualization tool for linking function to phylogeny in microbiomes K McDonnell, N Waters, E Howley, F Abram Bioinformatics 36 (4), 1309-1310, 2020 | 6 | 2020 |
| Absence of Curli in Soil-Persistent Escherichia coli Is Mediated by a C-di-GMP Signaling Defect and Suggests Evidence of Biofilm-Independent Niche Specialization YM Somorin, T Vollmerhausen, N Waters, L Pritchard, F Abram, ... Frontiers in Microbiology 9, 1340, 2018 | 5 | 2018 |
| Immune-related colitis is associated with fecal microbial dysbiosis and can be mitigated by fecal microbiota transplantation A Elkrief, NR Waters, N Smith, A Dai, J Slingerland, N Aleynick, B Febles, ... Cancer Immunology Research 12 (3), 308-321, 2024 | 2 | 2024 |
| Scalable Log-ratio Lasso Regression Enhances Microbiome Feature Selection for Predictive Models. T Fei, T Funnell, NR Waters, SS Raj, SM Devlin, A Dai, O Miltiadous, ... Biorxiv: the Preprint Server for Biology, 2023 | 2* | 2023 |
| Shotgun sequencing of serial fecal microbiome samples in patients with colorectal cancer reveals distinct bacterial species and metabolic pathways associated with tumor … M Lumish, N Waters, J Leinwand, A Saxena, A Dai, T Fei, M Fox, ... Cancer Research 84 (6_Supplement), 2805-2805, 2024 | | 2024 |
