| The RAST Server: rapid annotations using subsystems technology RK Aziz, D Bartels, AA Best, M DeJongh, T Disz, RA Edwards, K Formsma, ... BMC genomics 9 (1), 1-15, 2008 | 11211 | 2008 |
| 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 | 4184 | 2014 |
| The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes R Overbeek, T Begley, RM Butler, JV Choudhuri, HY Chuang, M Cohoon, ... Nucleic acids research 33 (17), 5691-5702, 2005 | 2210 | 2005 |
| 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), 8365, 2015 | 2124 | 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 | 1402 | 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 | 1296 | 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 | 750 | 2020 |
| Characterization of the Staphylococcus aureus Heat Shock, Cold Shock, Stringent, and SOS Responses and Their Effects on Log-Phase mRNA Turnover KL Anderson, C Roberts, T Disz, V Vonstein, K Hwang, R Overbeek, ... Journal of bacteriology 188 (19), 6739-6756, 2006 | 330 | 2006 |
| The ERGO TM genome analysis and discovery system R Overbeek, N Larsen, T Walunas, M D'Souza, G Pusch, E Selkov Jr, ... Nucleic acids research 31 (1), 164-171, 2003 | 282 | 2003 |
| SEED servers: high-performance access to the SEED genomes, annotations, and metabolic models RK Aziz, S Devoid, T Disz, RA Edwards, CS Henry, GJ Olsen, R Olson, ... PloS one 7 (10), e48053, 2012 | 220 | 2012 |
| Automated genome annotation and metabolic model reconstruction in the SEED and Model SEED S Devoid, R Overbeek, M DeJongh, V Vonstein, AA Best, C Henry Systems metabolic engineering: methods and protocols, 17-45, 2013 | 162 | 2013 |
| 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 | 157 | 2023 |
| 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 | 147 | 2016 |
| Accessing the SEED genome databases via Web services API: tools for programmers T Disz, S Akhter, D Cuevas, R Olson, R Overbeek, V Vonstein, R Stevens, ... BMC bioinformatics 11 (1), 1-11, 2010 | 138 | 2010 |
| The National Microbial Pathogen Database Resource (NMPDR): a genomics platform based on subsystem annotation LK McNeil, C Reich, RK Aziz, D Bartels, M Cohoon, T Disz, RA Edwards, ... Nucleic acids research 35 (suppl_1), D347-D353, 2007 | 118 | 2007 |
| Archaeal shikimate kinase, a new member of the GHMP-kinase family M Daugherty, V Vonstein, R Overbeek, A Osterman Journal of Bacteriology 183 (1), 292-300, 2001 | 116 | 2001 |
| 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 | 96 | 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 | 83 | 2018 |
| Functional analysis of gapped microbial genomes: Amino acid metabolism of Thiobacillus ferrooxidans E Selkov, R Overbeek, Y Kogan, L Chu, V Vonstein, D Holmes, S Silver, ... Proceedings of the National Academy of Sciences 97 (7), 3509-3514, 2000 | 81 | 2000 |
| Annotation of bacterial and archaeal genomes: improving accuracy and consistency R Overbeek, D Bartels, V Vonstein, F Meyer Chemical reviews 107 (8), 3431-3447, 2007 | 68 | 2007 |
