R
Ron Caspi
Researcher at SRI International
Publications - 30
Citations - 7647
Ron Caspi is an academic researcher from SRI International. The author has contributed to research in topics: MetaCyc & Plasmid. The author has an hindex of 22, co-authored 30 publications receiving 6273 citations. Previous affiliations of Ron Caspi include University of California, San Diego & Scripps Institution of Oceanography.
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Journal ArticleDOI
The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases
Ron Caspi,Richard Billington,Luciana Ferrer,Hartmut Foerster,Carol A. Fulcher,Ingrid M. Keseler,Anamika Kothari,Markus Krummenacker,Mario Latendresse,Lukas A. Mueller,Quang Ong,Suzanne M. Paley,Pallavi Subhraveti,Daniel Weaver,Peter D. Karp +14 more
TL;DR: The BioCyc PGDBs generated by SRI are offered for adoption by any interested party for the ongoing integration of metabolic and genome-related information about an organism.
Journal ArticleDOI
The MetaCyc database of metabolic pathways and enzymes.
Ron Caspi,Richard Billington,Carol A. Fulcher,Ingrid M. Keseler,Anamika Kothari,Markus Krummenacker,Mario Latendresse,Peter E. Midford,Quang Ong,Wai Kit Ong,Suzanne M. Paley,Pallavi Subhraveti,Peter D. Karp +12 more
TL;DR: This article provides an update on the developments in MetaCyc during the past two years, including the expansion of data and addition of new features.
Journal ArticleDOI
MetaCyc: a multiorganism database of metabolic pathways and enzymes
Ron Caspi,Hartmut Foerster,Carol A. Fulcher,Rebecca Hopkinson,John L. Ingraham,Pallavi Kaipa,Markus Krummenacker,Suzanne M. Paley,John Pick,Seung Y. Rhee,Christophe Tissier,Peifen Zhang,Peter D. Karp +12 more
TL;DR: In the past 2 years the data content and the Pathway Tools software used to query, visualize and edit MetaCyc have been expanded significantly, and these enhancements are described in this paper.
Journal ArticleDOI
The EcoCyc database: reflecting new knowledge about Escherichia coli K-12.
Ingrid M. Keseler,Amanda Mackie,Alberto Santos-Zavaleta,Richard Billington,César Bonavides-Martínez,Ron Caspi,Carol A. Fulcher,Socorro Gama-Castro,Anamika Kothari,Markus Krummenacker,Mario Latendresse,Luis Muñiz-Rascado,Quang Ong,Suzanne M. Paley,Martín Peralta-Gil,Pallavi Subhraveti,David A. Velázquez-Ramírez,Daniel Weaver,Julio Collado-Vides,Ian T. Paulsen,Peter D. Karp +20 more
TL;DR: EcoCyc now supports running and modifying E. coli metabolic models directly on the EcoCyc website, and new SmartTable tools allow users to browse collections of related Eco Cyc content.
Journal ArticleDOI
The BioCyc collection of microbial genomes and metabolic pathways.
Peter D. Karp,Richard Billington,Ron Caspi,Carol A. Fulcher,Mario Latendresse,Anamika Kothari,Ingrid M. Keseler,Markus Krummenacker,Peter E. Midford,Quang Ong,Wai Kit Ong,Suzanne M. Paley,Pallavi Subhraveti +12 more
TL;DR: BioCyc.org is a microbial genome Web portal that combines thousands of genomes with additional information inferred by computer programs, imported from other databases and curated from the biomedical literature by biologist curators.