| The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases R Caspi, T Altman, R Billington, K Dreher, H Foerster, CA Fulcher, ... Nucleic acids research 42 (D1), D459-D471, 2014 | 4671* | 2014 |
| The MetaCyc database of metabolic pathways and enzymes R Caspi, R Billington, CA Fulcher, IM Keseler, A Kothari, ... Nucleic acids research 46 (D1), D633-D639, 2018 | 915 | 2018 |
| The BioCyc collection of microbial genomes and metabolic pathways PD Karp, R Billington, R Caspi, CA Fulcher, M Latendresse, A Kothari, ... Briefings in bioinformatics 20 (4), 1085-1093, 2019 | 876 | 2019 |
| EcoCyc: fusing model organism databases with systems biology IM Keseler, A Mackie, M Peralta-Gil, A Santos-Zavaleta, S Gama-Castro, ... Nucleic acids research 41 (D1), D605-D612, 2013 | 735 | 2013 |
| The EcoCyc database: reflecting new knowledge about Escherichia coli K-12 IM Keseler, A Mackie, A Santos-Zavaleta, R Billington, ... Nucleic acids research 45 (D1), D543-D550, 2017 | 685 | 2017 |
| EcoCyc: a comprehensive database of Escherichia coli biology IM Keseler, J Collado-Vides, A Santos-Zavaleta, M Peralta-Gil, ... Nucleic acids research 39 (suppl_1), D583-D590, 2010 | 652 | 2010 |
| Pathway Tools version 13.0: integrated software for pathway/genome informatics and systems biology PD Karp, SM Paley, M Krummenacker, M Latendresse, JM Dale, TJ Lee, ... Briefings in bioinformatics 11 (1), 40-79, 2010 | 609 | 2010 |
| Pathway Tools version 19.0 update: software for pathway/genome informatics and systems biology PD Karp, M Latendresse, SM Paley, M Krummenacker, QD Ong, ... Briefings in bioinformatics 17 (5), 877-890, 2016 | 303 | 2016 |
| Multidimensional annotation of the Escherichia coli K-12 genome PD Karp, IM Keseler, A Shearer, M Latendresse, M Krummenacker, ... Nucleic acids research 35 (22), 7577-7590, 2007 | 226 | 2007 |
| The ecocyc database PD Karp, WK Ong, S Paley, R Billington, R Caspi, C Fulcher, A Kothari, ... EcoSal Plus 8 (1), 10.1128/ecosalplus. ESP-0006-2018, 2018 | 194 | 2018 |
| Pathway Tools version 23.0 update: software for pathway/genome informatics and systems biology PD Karp, PE Midford, R Billington, A Kothari, M Krummenacker, ... Briefings in bioinformatics 22 (1), 109-126, 2021 | 179 | 2021 |
| Creation of a Genome-Wide Metabolic Pathway Database for Populus trichocarpa Using a New Approach for Reconstruction and Curation of Metabolic Pathways … P Zhang, K Dreher, A Karthikeyan, A Chi, A Pujar, R Caspi, P Karp, ... Plant Physiology 153 (4), 1479-1491, 2010 | 151 | 2010 |
| The pathway tools pathway prediction algorithm PD Karpe, M Latendresse, R Caspi Standards in genomic sciences 5, 424-429, 2011 | 145 | 2011 |
| Construction and completion of flux balance models from pathway databases M Latendresse, M Krummenacker, M Trupp, PD Karp Bioinformatics 28 (3), 388-396, 2012 | 124 | 2012 |
| Behavioral contracts and behavioral subtyping RB Findler, M Latendresse, M Felleisen Proceedings of the 8th European software engineering conference held jointly …, 2001 | 110 | 2001 |
| Accurate atom-mapping computation for biochemical reactions M Latendresse, JP Malerich, M Travers, PD Karp Journal of chemical information and modeling 52 (11), 2970-2982, 2012 | 94 | 2012 |
| Fully automated chemical synthesis: toward the universal synthesizer N Collins, D Stout, JP Lim, JP Malerich, JD White, PB Madrid, ... Organic Process Research & Development 24 (10), 2064-2077, 2020 | 74 | 2020 |
| Optimal metabolic route search based on atom mappings M Latendresse, M Krummenacker, PD Karp Bioinformatics 30 (14), 2043-2050, 2014 | 65 | 2014 |
| The MetaCyc Database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases PD Karp, R Caspi, H Foerster, CA Fulcher, P Kaipa, M Krummenacker, ... Nucleic Acids Res 36, D623-D631, 2008 | 63 | 2008 |
| How accurate is automated gap filling of metabolic models? PD Karp, D Weaver, M Latendresse BMC systems biology 12, 1-11, 2018 | 55 | 2018 |