| The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST) R Overbeek, R Olson, GD Pusch, GJ Olsen, JJ Davis, T Disz, RA Edwards, ... Nucleic acids research 42 (D1), D206-D214, 2014 | 4582 | 2014 |
| RASTtk: a modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes T Brettin, JJ Davis, T Disz, RA Edwards, S Gerdes, GJ Olsen, R Olson, ... Scientific reports 5 (1), 1-6, 2015 | 2523 | 2015 |
| Improvements to PATRIC, the all-bacterial bioinformatics database and analysis resource center AR Wattam, JJ Davis, R Assaf, S Boisvert, T Brettin, C Bun, N Conrad, ... Nucleic acids research 45 (D1), D535-D542, 2017 | 1572 | 2017 |
| PATRIC, the bacterial bioinformatics database and analysis resource AR Wattam, D Abraham, O Dalay, TL Disz, T Driscoll, JL Gabbard, ... Nucleic acids research 42 (D1), D581-D591, 2014 | 1377 | 2014 |
| The PATRIC Bioinformatics Resource Center: expanding data and analysis capabilities JJ Davis, AR Wattam, RK Aziz, T Brettin, R Butler, RM Butler, P Chlenski, ... Nucleic acids research 48 (D1), D606-D612, 2020 | 906 | 2020 |
| Introducing the bacterial and viral bioinformatics resource center (BV-BRC): a resource combining PATRIC, IRD and ViPR RD Olson, R Assaf, T Brettin, N Conrad, C Cucinell, JJ Davis, ... Nucleic acids research 51 (D1), D678-D689, 2023 | 449 | 2023 |
| PATRIC: the comprehensive bacterial bioinformatics resource with a focus on human pathogenic species JJ Gillespie, AR Wattam, SA Cammer, JL Gabbard, MP Shukla, O Dalay, ... Infection and immunity 79 (11), 4286-4298, 2011 | 363 | 2011 |
| Rickettsia phylogenomics: unwinding the intricacies of obligate intracellular life JJ Gillespie, K Williams, M Shukla, EE Snyder, EK Nordberg, SM Ceraul, ... PloS one 3 (4), e2018, 2008 | 239 | 2008 |
| Antimicrobial resistance prediction in PATRIC and RAST JJ Davis, S Boisvert, T Brettin, RW Kenyon, C Mao, R Olson, R Overbeek, ... Scientific reports 6 (1), 27930, 2016 | 227 | 2016 |
| PATtyFams: protein families for the microbial genomes in the PATRIC database JJ Davis, S Gerdes, GJ Olsen, R Olson, GD Pusch, M Shukla, V Vonstein, ... Frontiers in microbiology 7, 118, 2016 | 196 | 2016 |
| Analysis of Ten Brucella Genomes Reveals Evidence for Horizontal Gene Transfer Despite a Preferred Intracellular Lifestyle AR Wattam, KP Williams, EE Snyder, NF Almeida Jr, M Shukla, ... Journal of bacteriology 191 (11), 3569-3579, 2009 | 155 | 2009 |
| Comparative phylogenomics and evolution of the Brucellae reveal a path to virulence AR Wattam, JT Foster, SP Mane, SM Beckstrom-Sternberg, ... Journal of bacteriology 196 (5), 920-930, 2014 | 137 | 2014 |
| Insight of Genus Corynebacterium: Ascertaining the Role of Pathogenic and Non-pathogenic Species A Oliveira, LC Oliveira, F Aburjaile, L Benevides, S Tiwari, SB Jamal, ... Frontiers in microbiology 8, 1937, 2017 | 136 | 2017 |
| PATRIC as a unique resource for studying antimicrobial resistance DA Antonopoulos, R Assaf, RK Aziz, T Brettin, C Bun, N Conrad, JJ Davis, ... Briefings in bioinformatics 20 (4), 1094-1102, 2019 | 112 | 2019 |
| Assembly, annotation, and comparative genomics in PATRIC, the all bacterial bioinformatics resource center AR Wattam, T Brettin, JJ Davis, S Gerdes, R Kenyon, D Machi, C Mao, ... Comparative genomics: Methods and protocols, 79-101, 2018 | 95 | 2018 |
| Brucella spp. of amphibians comprise genomically diverse motile strains competent for replication in macrophages and survival in mammalian hosts S Al Dahouk, S Köhler, A Occhialini, MP Jiménez de Bagüés, JA Hammerl, ... Scientific reports 7 (1), 44420, 2017 | 87 | 2017 |
| Curation, integration and visualization of bacterial virulence factors in PATRIC C Mao, D Abraham, AR Wattam, MJC Wilson, M Shukla, HS Yoo, ... Bioinformatics 31 (2), 252-258, 2015 | 87 | 2015 |
| A synthesis of bacterial and archaeal phenotypic trait data JS Madin, DA Nielsen, M Brbic, R Corkrey, D Danko, K Edwards, ... Scientific data 7 (1), 170, 2020 | 83 | 2020 |
| Comparative mangrove metagenome reveals global prevalence of heavy metals and antibiotic resistome across different ecosystems M Imchen, R Kumavath, D Barh, A Vaz, A Góes-Neto, S Tiwari, P Ghosh, ... Scientific reports 8 (1), 11187, 2018 | 73 | 2018 |
| Searching for signatures across microbial communities: Metagenomic analysis of soil samples from mangrove and other ecosystems M Imchen, R Kumavath, D Barh, V Azevedo, P Ghosh, M Viana, ... Scientific reports 7 (1), 1-13, 2017 | 71 | 2017 |
