KEGGgraph: a graph approach to KEGG PATHWAY in R and bioconductor

JD Zhang, S Wiemann - Bioinformatics, 2009 - academic.oup.com
Motivation: KEGG PATHWAY is a service of Kyoto Encyclopedia of Genes and Genomes
(KEGG), constructing manually curated pathway maps that represent current knowledge on …

KEGGtranslator: visualizing and converting the KEGG PATHWAY database to various formats

C Wrzodek, A Dräger, A Zell - Bioinformatics, 2011 - academic.oup.com
The KEGG PATHWAY database provides a widely used service for metabolic and
nonmetabolic pathways. It contains manually drawn pathway maps with information about …

Dynamic exploration and editing of KEGG pathway diagrams

C Klukas, F Schreiber - Bioinformatics, 2007 - academic.oup.com
Abstract Motivation: The Kyoto Encyclopedia of Genes and Genomes (KEGG) Pathway
database is a very valuable information resource for researchers in the fields of life sciences …

Gene annotation and pathway mapping in KEGG

KF Aoki-Kinoshita, M Kanehisa - Comparative genomics, 2007 - Springer
KEGG is a database resource (http://www. genome. jp/kegg/) that provides all knowledge
about genomes and their relationships to biological systems such as cells and whole …

The KEGG database

M Kanehisa - 'In silico'simulation of biological processes …, 2002 - Wiley Online Library
Summary KEGG (http://www. genome. ad. jp/kegg/) is a suite of databases and associated
software for understanding and simulating higher‐order functional behaviours of the cell or …

From genomics to chemical genomics: new developments in KEGG

M Kanehisa, S Goto, M Hattori… - Nucleic acids …, 2006 - academic.oup.com
The increasing amount of genomic and molecular information is the basis for understanding
higher-order biological systems, such as the cell and the organism, and their interactions …

Data, information, knowledge and principle: back to metabolism in KEGG

M Kanehisa, S Goto, Y Sato, M Kawashima… - Nucleic acids …, 2014 - academic.oup.com
In the hierarchy of data, information and knowledge, computational methods play a major
role in the initial processing of data to extract information, but they alone become less …

KEGG: integrating viruses and cellular organisms

M Kanehisa, M Furumichi, Y Sato… - Nucleic acids …, 2021 - academic.oup.com
Abstract KEGG (https://www. kegg. jp/) is a manually curated resource integrating eighteen
databases categorized into systems, genomic, chemical and health information. It also …

New approach for understanding genome variations in KEGG

M Kanehisa, Y Sato, M Furumichi… - Nucleic acids …, 2019 - academic.oup.com
Abstract KEGG (Kyoto Encyclopedia of Genes and Genomes; https://www. kegg. jp/or
https://www. genome. jp/kegg/) is a reference knowledge base for biological interpretation of …

graphite - a Bioconductor package to convert pathway topology to gene network

G Sales, E Calura, D Cavalieri, C Romualdi - BMC bioinformatics, 2012 - Springer
Background Gene set analysis is moving towards considering pathway topology as a crucial
feature. Pathway elements are complex entities such as protein complexes, gene family …