Where can I download KEGG database?
Please find in the following https://www.kegg.jp/kegg-bin/get_htext?ko00001.keg the KEGG database, possible to download in txt format.
How do I download a KEGG database?
Check latest list at http://www.kegg.jp/kegg-bin/get_htext?ko00001.keg then click download htext. You can use REST based KEGG API to retrieve pathway list or other information. You can use the CPDB for a pathway / gene mapping for ALL major websites like kegg or wikipathways in one file in the download section.
What does pathway analysis tell you?
You need a Pathway Analysis – when you care about how genes are known to interact. The crucial difference between a gene set and a pathway is that a gene set is an unordered collection of genes whereas a pathway is a complex model that describes a given process, mechanism or phenomenon.
What is KEGG network?
KEGG NETWORK represents a renewed attempt by KEGG to capture knowledge of diseases and drugs in terms of perturbed molecular networks (see Background of KEGG DISEASE). It accumulates variations of molecular interaction/reaction networks in terms of “network variation maps” consisting of “network elements”.
Which is a pathway database?
Pathway databases are a means to systematically associate proteins with their functions and link them into networks that describe the reaction space of an organism.
What is the difference between GO and KEGG?
GO stands for Gene Ontology and as the name suggests, it annotates genes using an ontology. KEGG, Panther and other “pathway” databases group genes into “pathways” which are basically lists of genes participating in the same biological process.
What is the KEGG PATHWAY database?
The KEGG PATHWAY database has been and will continue to be the main database in KEGG. It consists of manually drawn reference pathway maps together with organism-specific pathway maps that are computationally generated by matching KO assignments in the genome with reference pathway maps.
How does KEGG work?
First, KEGG computerizes data and knowledge on protein interaction networks (PATHWAY database) and chemical reactions (LIGAND database) that are responsible for various cellular processes. Second, KEGG attempts to reconstruct protein interaction networks for all organisms whose genomes are completely sequenced (GENES and SSDB databases).
What is the KEGG object identifier?
The KEGG object identifier or simply the KEGG identifier is the unique identifier for each KEGG object, which is also the database entry identifier in KEGG (Table (Table1).1).
How can KEGG be used for functional genomics?
Third, KEGG can be utilized as reference knowledge for functional genomics (EXPRESSION database) and proteomics (BRITE database) experiments. I will review the current status of KEGG and report on new developments in graph representation and graph computations. you can request a copy directly from the author.