Artículo
Caspi, R.; Billington, R.; Ferrer, L.; Foerster, H.; Fulcher, C.A.; Keseler, I.M.; Kothari, A.; Krummenacker, M.; Latendresse, M.; Mueller, L.A.; Ong, Q.; Paley, S.; Subhraveti, P.; Weaver, D.S.; Karp, P.D. "The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases" (2016) Nucleic Acids Research. 44(D1):D471-D480
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Abstract:
The MetaCyc database (MetaCyc.org) is a freely accessible comprehensive database describing metabolic pathways and enzymes from all domains of life. The majority of MetaCyc pathways are small-molecule metabolic pathways that have been experimentally determined. MetaCyc contains more than 2400 pathways derived from >46 000 publications, and is the largest curated collection of metabolic pathways. BioCyc (BioCyc.org) is a collection of 5700 organism-specific Pathway/Genome Databases (PGDBs), each containing the full genome and predicted metabolic network of one organism, including metabolites, enzymes, reactions, metabolic pathways, predicted operons, transport systems, and pathway-hole fillers. The BioCyc website offers a variety of tools for querying and analyzing PGDBs, including Omics Viewers and tools for comparative analysis. This article provides an update of new developments in MetaCyc and BioCyc during the last two years, including addition of Gibbs free energy values for compounds and reactions; redesign of the primary gene/protein page; addition of a tool for creating diagrams containing multiple linked pathways; several new search capabilities, including searching for genes based on sequence patterns, searching for databases based on an organism's phenotypes, and a cross-organism search; and a metabolite identifier translation service. © The Author(s) 2015.
Registro:
| Documento: | Artículo |
| Título: | The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases |
| Autor: | Caspi, R.; Billington, R.; Ferrer, L.; Foerster, H.; Fulcher, C.A.; Keseler, I.M.; Kothari, A.; Krummenacker, M.; Latendresse, M.; Mueller, L.A.; Ong, Q.; Paley, S.; Subhraveti, P.; Weaver, D.S.; Karp, P.D. |
| Filiación: | SRI International, 333 Ravenswood, Menlo Park, CA 94025, United States FCEN, University of Buenos Aires, CONICET, Argentina Boyce Thompson Institute for Plant Research, Tower Road, Ithaca, NY 14853, United States |
| Palabras clave: | algorithm; Article; electron transport; factual database; gene sequence; genetic database; human; metabolism; metabolite; molecular weight; nonhuman; operon; phenotype; priority journal; quality control; chemical database; genetics; genome; Internet; software; enzyme; Databases, Chemical; Databases, Genetic; Electron Transport; Enzymes; Genome; Internet; Metabolic Networks and Pathways; Software |
| Año: | 2016 |
| Volumen: | 44 |
| Número: | D1 |
| Página de inicio: | D471 |
| Página de fin: | D480 |
| DOI: | http://dx.doi.org/10.1093/nar/gkv1164 |
| Título revista: | Nucleic Acids Research |
| Título revista abreviado: | Nucleic Acids Res. |
| ISSN: | 03051048 |
| CODEN: | NARHA |
| CAS: | Enzymes |
| Registro: | https://bibliotecadigital.exactas.uba.ar/collection/paper/document/paper_03051048_v44_nD1_pD471_Caspi |
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Citas:
---------- APA ----------
Caspi, R., Billington, R., Ferrer, L., Foerster, H., Fulcher, C.A., Keseler, I.M., Kothari, A.,..., Karp, P.D. (2016) . The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases. Nucleic Acids Research, 44(D1), D471-D480.http://dx.doi.org/10.1093/nar/gkv1164
---------- CHICAGO ----------
Caspi, R., Billington, R., Ferrer, L., Foerster, H., Fulcher, C.A., Keseler, I.M., et al. "The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases" . Nucleic Acids Research 44, no. D1 (2016) : D471-D480.http://dx.doi.org/10.1093/nar/gkv1164
---------- MLA ----------
Caspi, R., Billington, R., Ferrer, L., Foerster, H., Fulcher, C.A., Keseler, I.M., et al. "The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases" . Nucleic Acids Research, vol. 44, no. D1, 2016, pp. D471-D480.http://dx.doi.org/10.1093/nar/gkv1164
---------- VANCOUVER ----------
Caspi, R., Billington, R., Ferrer, L., Foerster, H., Fulcher, C.A., Keseler, I.M., et al. The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases. Nucleic Acids Res. 2016;44(D1):D471-D480.http://dx.doi.org/10.1093/nar/gkv1164
