The MetaCyc Database
By Peter D. Karp, M. Riley, Suzanne M. Paley, A. Pellegrini-Toole. Nucleic Acids Res., 2002
452 citations recorded by the source corpus.
Subfields: Molecular Biology
View Paper: https://www.semanticscholar.org/paper/bcfc211ded9e3532c0b2bd06a511ee69a7ec97ed
How researchers see this paper
The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.
In Molecular Biology
- Markus Krummenacker
- Peifen Zhang
- Peter D. Karp
- Seung Yon Rhee
- Lukas A. Mueller
- Atul J. Butte
- Suzanne M. Paley
- Pedro Romero
Citations in the corpus
- Enzyme-specific profiles for genome annotation: PRIAM. (2003, background): “Once enzyme-coding genes are detected, they can be reported in pathway-oriented databases such as WIT (7), ECOCYC (8), METACYC (9), KEGG (10) or UMBBD (11).”
- The Pathway Tools software (2002, methodology): “The PathoLogic inference process predicts the metabolicpathway complement of S from its genome by comparison to the MetaCyc pathway DB (Karp et al., 2002).”
- The Arabidopsis Information Resource (TAIR): a model organism database providing a centralized, curated gateway to Arabidopsis biology, research materials and community (2003, methodology): “TAIR has relied on the Pathway Tools software (6) to build an Arabidopsis specific pathway database called AraCyc (http://arabidopsis.”
- Computational prediction of human metabolic pathways from the complete human genome (2004, methodology): “For example, at least four variants of the 'glycolytic pathway' have been described [15].”
- MetaCyc: a multiorganism database of metabolic pathways and enzymes (2005, methodology): “We have added ~460 enzymes to MetaCyc since version 5.6, which was released in 2001 and described in a previous Nucleic Acids Research paper ( 1 ).”
- Ten Years of Pathway Analysis: Current Approaches and Outstanding Challenges (2012, methodology): “These knowledge bases include KEGG [32], MetaCyc [33], Reactome [34], RegulonDB [35], STKE (http://stke.sciencemag.org), BioCarta (http://www. biocarta.com), and PantherDB [36].”
- MAPPFinder: using Gene Ontology and GenMAPP to create a global gene-expression profile from microarray data (2003, unknown): “Several other pathway programs such as KEGG [4], EcoCyc/MetaCyc [5], Pathway Processor (which uses KEGG) [6] and ViMAc [7] are available for integration with microarray data analysis, but these programs focus on well-defined metabolic pathways, and like GenMAPP, would benefit from a broader base of…”
- Saccharomyces Genome Database (SGD) provides tools to identify and analyze sequences from Saccharomyces cerevisiae and related sequences from other organisms (2004, methodology): “Using the MetaCyc Database of metabolic reactions (7) and the Pathway Tools software created by Peter Karp's group (8), SGD has generated metabolic pathway information for S.”