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KEGG (Kyoto Encyclopedia of Genes and Genomes) is a collection of databases dealing with genomes, biological pathways, diseases, drugs, and chemical substances.KEGG is utilized for bioinformatics research and education, including data analysis in genomics, metagenomics, metabolomics and other omics studies, modeling and simulation in systems biology, and translational research in drug development.
In addition to various primary data formats (e.g. GPML, BioPAX, Reactome, [10] KEGG, and RDF [11]), WikiPathways supports a variety of ways to integrate and interact with pathway content. These include directed link-outs, image maps, RSS feeds and deep web services. [12] This enables reuse in projects like COVID19 Disease Map. [13]
To begin a session on MetPA users must first have a list of significant compounds derived from a metabolomic tests or compounds and concentration data with information about the phenotype of the organisms under study. The list of compounds can include common names, HMDB IDs or KEGG IDs with one compound per row. Compound concentration tables ...
Pathway resources and types of pathway analysis using databases like KEGG, Reactome and WikiPathways. [1]Pathway is the term from molecular biology for a curated schematic representation of a well characterized segment of the molecular physiological machinery, such as a metabolic pathway describing an enzymatic process within a cell or tissue or a signaling pathway model representing a ...
Numerous databases collect information about species and other taxonomic categories. The Catalogue of Life is a special case as it is a meta-database of about 150 specialized "global species databases" (GSDs) that have collected the names and other information on (almost) all described and thus "known" species.
KEGG: Kyoto Encyclopedia of Genes and Genomes Kyoto University Bioinformatics Center: Compounds Glycans (also enzymes, reactions, pathways) CAS ChEBI ChEMBL MASSBANK NIKKAJI PubChem PDB-CCD "KEGG". K i Database: PDSP ligand binding "Ki Database". KNApSAcK Nara Institute of Science and Technology: InChI CAS SMILES organisms C00 "KNApSAcK". LINCS
A web interface is available to access the data and to give a fast overview of the proteins and their interactions. A plug-in for cytoscape to use STRING data is available. Another possibility to access data STRING is to use the application programming interface (API) by constructing a URL that contain the request.
The ‘KEGG Organisms’ section, which is divided into eukaryotes and prokaryotes, encompasses many organisms for which gene and DNA information can be searched by typing in the enzyme of choice. BioCyc, EcoCyc, and MetaCyc : BioCyc Is a collection of 3,000 pathway/genome databases (as of Oct 2013), with each database dedicated to one organism.