The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases

R Caspi, T Altman, K Dreher, CA Fulcher…�- Nucleic acids�…, 2012 - academic.oup.com
data content of MetaCyc and BioCyc. We also added supporting enhancements to the Pathway
Tools software and BioCyc … Starting in July 2011, BioCyc includes a new feature called …

The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases

R Caspi, T Altman, R Billington, K Dreher…�- Nucleic acids�…, 2014 - academic.oup.com
… They provide powerful tools for analyzing omics data sets from … data content of MetaCyc
and BioCyc, and added supporting enhancements to the Pathway Tools software and BioCyc

The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases

R Caspi, R Billington, L Ferrer, H Foerster…�- Nucleic acids�…, 2016 - academic.oup.com
… , enzymes, reactions, metabolic pathways, predicted operons, transport systems, and
pathway-hole fillers. The BioCyc … of new developments in MetaCyc and BioCyc during the last two …

The MetaCyc database of metabolic pathways and enzymes

R Caspi, R Billington, CA Fulcher…�- Nucleic acids�…, 2018 - academic.oup.com
MetaCyc is also used as a knowledge base for generating … Pathway/Genome Databases
(PGDBs), which are available in the BioCyc (https://BioCyc.org) and other PGDB collections. …

The MetaCyc database of metabolic pathways and enzymes-a 2019 update

R Caspi, R Billington, IM Keseler, A Kothari…�- Nucleic acids�…, 2020 - academic.oup.com
… organism-specific Pathway/Genome Databases (PGDBs), which are available in BioCyc.org …
Research we described the MetaCyc database together with the BioCyc PGDB collection (6)…

A survey of metabolic databases emphasizing the MetaCyc family

PD Karp, R Caspi�- Archives of toxicology, 2011 - Springer
… created in the form of a Pathway/Genome Database (PGDB). … , MetaCyc contains metabolic
pathways and enzymes from more … a collection of more than 1,000 databases at BioCyc.org. …

[HTML][HTML] A systematic comparison of the MetaCyc and KEGG pathway databases

T Altman, M Travers, A Kothari, R Caspi, PD Karp�- BMC bioinformatics, 2013 - Springer
… the BioCyc database collection [2], and in many other Pathway/Genome Databases developed
… entry names and enzymatic activity names from MetaCyc enzyme information associated …

[PDF][PDF] CURATOR GUIDE FOR PATHWAY/GENOME DATABASES

RON CASPI, C FULCHER, I KESELER… - 2014 - pathwaytools.org
… Tier levels: The BioCyc databases are divided into three tiers… about genes, enzymes, and
metabolic pathways. The PubMed ID … to MetaCyc and are assigned within MetaCyc to enzymes

[HTML][HTML] The pathway tools pathway prediction algorithm

PD Karpe, M Latendresse, R Caspi�- Standards in genomic sciences, 2011 - Springer
… on the MetaCyc database of metabolic reactions and pathways. … SRI BioCyc database
collection [3,4] contains Pathway/GenomeMetaCyc contains a large collection of enzyme names …

Data mining in the MetaCyc family of pathway databases

PD Karp, S Paley, T Altman�- Data mining for systems biology: methods�…, 2013 - Springer
… of metabolic pathways from the MetaCyc pathway/genome … Versions of Internet Explorer
released prior to 2011 are not … For example, EcoCyc contains extensive curated information on …