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 …

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 …

[HTML][HTML] CyKEGGParser: tailoring KEGG pathways to fit into systems biology analysis workflows

L Nersisyan, R Samsonyan, A Arakelyan - F1000Research, 2014 - ncbi.nlm.nih.gov
The KEGG pathway database is a widely accepted source for biomolecular pathway maps.
In this paper we present the CyKEGGParser app (http://apps. cytoscape. org/apps …

Precise generation of systems biology models from KEGG pathways

C Wrzodek, F Büchel, M Ruff, A Dräger, A Zell - BMC systems biology, 2013 - Springer
Abstract Background The KEGG PATHWAY database provides a plethora of pathways for a
diversity of organisms. All pathway components are directly linked to other KEGG databases …

KEGGParser: parsing and editing KEGG pathway maps in Matlab

A Arakelyan, L Nersisyan - Bioinformatics, 2013 - academic.oup.com
KEGG pathway database is a collection of manually drawn pathway maps accompanied
with KGML format files intended for use in automatic analysis. KGML files, however, do not …

Molecular network analysis of diseases and drugs in KEGG

M Kanehisa - Data Mining for Systems Biology: Methods and …, 2013 - Springer
Abstract KEGG (http://www. genome. jp/kegg/) is an integrated database resource for linking
genomes or molecular datasets to molecular networks (pathways, etc.) representing higher …

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 …

PathwayExplorer: web service for visualizing high-throughput expression data on biological pathways

B Mlecnik, M Scheideler, H Hackl, J Hartler… - Nucleic acids …, 2005 - academic.oup.com
While generation of high-throughput expression data is becoming routine, the fast, easy, and
systematic presentation and analysis of these data in a biological context is still an obstacle …

KEGG Atlas mapping for global analysis of metabolic pathways

S Okuda, T Yamada, M Hamajima, M Itoh… - Nucleic acids …, 2008 - academic.oup.com
KEGG Atlas is a new graphical interface to the KEGG suite of databases, especially to the
systems information in the PATHWAY and BRITE databases. It currently consists of a single …

Pathway projector: web-based zoomable pathway browser using KEGG atlas and Google Maps API

N Kono, K Arakawa, R Ogawa, N Kido, K Oshita… - PloS one, 2009 - journals.plos.org
Background Biochemical pathways provide an essential context for understanding
comprehensive experimental data and the systematic workings of a cell. Therefore, the …