MetaCyc Publications

If you use MetaCyc in your research, we ask that you cite the following publication:

[MetaCyc14] Caspi, R. Altman, T. Billington. R, Dreher. K, Foerster. H, Fulcher. CA, Holland. TA, Keseler. IM, Kothari. A, Kubo. A, Krummenacker. M, Latendresse. M, Mueller. LA, Ong. Q, Paley. S, Subhraveti. P, Weaver. DS, Weerasinghe. D, Zhang P, and Karp, P.D.(2014)
The MetaCyc Database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases
Nucleic Acids Research 42(1):D459-D471.

Additional Publications

[MetaCyc13] T, Altman., M, Travers., A, Kothari., R. Caspi., and P.D. Karp. A systematic comparison of the MetaCyc and KEGG pathway databases.
BMC Bioinformatics. doi: 10.1186/1471-2105-14-112. 2013.

[MetaCyc13] Caspi, R., Dreher, K., and Karp, P.D The challenge of constructing, classifying, and representing metabolic pathways.
FEMS Microbiol Lett. doi: 10.1111/1574-6968.12194. 2013.

[MetaCyc12] Caspi, R., Altman, T., Dreher, K., Fulcher, CA., Subhraveti, P., Keseler, IM., Kothari, A., Krummenacker, M., Latendresse, M., Mueller, LA., Ong, Q., Paley, S., Pujar, A., Shearer, AG., Travers, M., Weerasinghe, D., Zhang, P., and Karp, P.D. (2012)
The MetaCyc Database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases
Nucleic Acids Research 40(1):D742-D753. 2012

[MetaCyc11] Karp, PD., and Caspi, R., A survey of metabolic databases emphasizing the MetaCyc family
Archives of Toxicology 85:1015-33 2011.

[MetaCyc10] Caspi, R., Altman, T., Dale, J.M., Dreher, K., Fulcher, C.A., Gilham, F., Kaipa, P., Karthikeyan, A.S., Kothari, A., Krummenacker, M., Latendresse, M., Mueller, L.A., Paley, S., Popescu, L., Pujar, A., Shearer, A., Zhang, P. and Karp, P.D. (2010)
The MetaCyc Database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases
Nucleic Acids Research 38(1):D473-D479.

[MetaCyc08] Caspi, R., Foerster, H., Fulcher, C.A., Kaipa, P., Krummenacker, M., Latendresse, M., Paley, S., Rhee, S.Y., Shearer, A., Tissier, C., Walk, T.C., Zhang, P. and Karp, P.D. (2008)
The MetaCyc Database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases
Nucleic Acids Research 36(1):D623-D631.

[MetaCyc06] Caspi, R., Foerster, H., Fulcher, C.A., Hopkinson, R., Ingraham, J., Kaipa, P., Krummenacker, M., Paley, S., Pick, J., Rhee, S.Y., Tissier, C., Zhang, P. and Karp, P.D. (2006)
MetaCyc: A multiorganism database of metabolic pathways and enzymes
Nucleic Acids Research, 34:D511-D516.

[MetaCyc04] Krieger, C.J., Zhang, P., Mueller, L.A., Wang, A., Paley, S., Arnaud, M., Pick, J., Rhee, S.Y., and Karp, P.D. (2004)
MetaCyc: A Multiorganism Database of Metabolic Pathways and Enzymes,
Nucleic Acids Research 32(1):D438-42.

[MetaCyc03] Karp, P.D. (2003)
The MetaCyc Metabolic Pathway Database
in: Metabolic Engineering, B. Kholodenko and H. Westerhoff eds., Horizon Scientific Press.

[MetaCyc02] Karp, P.D., Riley, M., Paley, S. and Pellegrini-Toole, A. (2002)
The MetaCyc Database
Nucleic Acids Research, 30(1):59-61.

[MetaCyc00] Karp, P.D., Riley, M., Saier, M., Paulsen, I.T., Paley, S., and Pellegrini-Toole, A. (2000)
The EcoCyc and MetaCyc Databases
Nucleic Acids Research, 28(1):56-59.

See also the BioCyc Publications Page