Karp, Peter D.

The complete genome sequence of the gastric pathogen Helicobacter pylori

Tomb, J.-F., White, O., Kerlavage, A. R., Clayton, R. A., Sutton, G. G., Fleischmann, R. D., Ketchum, K. A., Klenk, H. P., Gill, S., Dougherty, B. A., et al. (1997) · Nature

Helicobacter pylori-related gastroenterology studiesBacterial Genetics and Biotechnology

Cited by 3,529

The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases

Caspi, R., Billington, R., Ferrer, L., Foerster, H., Fulcher, C. A., Keseler, I. M., Kothari, A., Krummenacker, M., Latendresse, M., Mueller, L. A., et al. (2016) · Nucleic Acids Research

Bioinformatics and Genomic NetworksMicrobial Metabolic Engineering and Bioproduction

Cited by 3,395

The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases

Caspi, R., Altman, T., Billington, R., Dreher, K., Foerster, H., Fulcher, C. A., Holland, T. A., Keseler, I. M., Kothari, A., Kubo, A., et al. (2014) · Nucleic Acids Research

Bioinformatics and Genomic NetworksMicrobial Metabolic Engineering and Bioproduction

Cited by 1,204

The BioPAX community standard for pathway data sharing

Demir, E., Cary, M. P., Paley, S., Fukuda, K., Lemer, C., Vastrik, I., Wu, G., D'Eustachio, P., Schaefer, C., Luciano, J., et al. (2010) · Nature Biotechnology

Bioinformatics and Genomic NetworksBiomedical Text Mining and Ontologies

Cited by 745

Pathway Tools version 13.0: integrated software for pathway/genome informatics and systems biology

Karp, P. D., Paley, S. M., Krummenacker, M., Latendresse, M., Dale, J. M., Lee, T. J., Kaipa, P., Gilham, F., Spaulding, A., Popescu, L., et al. (2010) · Briefings in Bioinformatics

Bioinformatics and Genomic NetworksMicrobial Metabolic Engineering and Bioproduction

Cited by 694

The Pathway Tools software

Karp, P. D., Paley, S., & Romero, P. (2002) · Bioinformatics

Bioinformatics and Genomic NetworksMicrobial Metabolic Engineering and Bioproduction

Cited by 661

EcoCyc: A comprehensive view of Escherichia coli biology

Keseler, I. M., Bonavides-Martinez, C., Collado-Vides, J., Gama-Castro, S., Gunsalus, R. P., Johnson, D. A., Krummenacker, M., Nolan, L. M., Paley, S., Paulsen, I. T., et al. (2009) · Nucleic Acids Research

Bioinformatics and Genomic NetworksMicrobial Metabolic Engineering and Bioproduction

Cited by 373

Simultaneous cross-evaluation of heterogeneous E. coli datasets via mechanistic simulation

Macklin, D. N., Ahn-Horst, T. A., Choi, H., Ruggero, N. A., Carrera, J., Mason, J. C., Sun, G., Agmon, E., DeFelice, M. M., Maayan, I., et al. (2020) · Science

Gene Regulatory Network AnalysisMicrobial Metabolic Engineering and Bioproduction

Cited by 151

Cross-evaluation of E. coli’s operon structures via a whole-cell model suggests alternative cellular benefits for low- versus high-expressing operons

Sun, G., DeFelice, M. M., Gillies, T. E., Ahn-Horst, T. A., Andrews, C. J., Krummenacker, M., Karp, P. D., Morrison, J. H., & Covert, M. W. (2024) · Cell Systems

Gene Regulatory Network AnalysisBacterial Genetics and Biotechnology

Cited by 9