back icon
close icon

Capture phrases in quotes for more specific queries (e.g. "rocket ship" or "Fred Lynn")

Journal Article  June 15, 2014

The EcoCyc Database

SRI Authors Peter Karp, Mario Latendresse



Karp P.D., Ong W.K., Paley S., Billington R., Caspi R., Fulcher C., Kothari A., Krummenacker M., Latendresse M., Midford P.E., Subhraveti P., Gama-Castro S., Muniz-Rascado L., Bonavides-Martinez C., Santos-Zavaleta A., Mackie A., Collado-Vides J., Keseler I.M., & Paulsen I. (2018). The EcoCyc Database.EcoSal Plus. 8(1). DOI: 10.1128/ecosalplus.ESP-0006-2018


EcoCyc is a bioinformatics database available at that describes the genome and the biochemical machinery of Escherichia coliK-12 MG1655. The long-term goal of the project is to describe the complete molecular catalog of the E. coli cell, as well as the functions of each of its molecular parts, to facilitate a system-level under-standing of E. coli. EcoCyc is an electronic reference source for E. coli biologists and for biologists who work with related microorganisms. The database includes information pages on each E. coli gene product, metabolite, reaction, operon, and metabolic pathway. The database also includes information on E. coli gene essentiality and on nutrient conditions that do or do not support the growth of E. coli. The website and downloadable software contain tools for analysis of high-throughput data sets. In addition, a steady-state metabolic flux model is generated from each new version of EcoCyc and can be executed The model can predict metabolic flux rates, nutrient uptake rates, and growth rates for different gene knockouts and nutrient conditions. This review outlines the data content of EcoCyc and of the procedures by which this content is generated.

How can we help?

Once you hit send…

We’ll match your inquiry to the person who can best help you. Expect a response within 48 hours.

Our Privacy Policy