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Chemical Proteomics

Volume 803 of the series Methods in Molecular Biology pp 273-296

Date:

A Database for Chemical Proteomics: ChEBI

  • Paula de MatosAffiliated withEuropean Bioinformatics Institute Email author 
  • , Nico AdamsAffiliated withDepartment of Genetics, University of Cambridge
  • , Janna HastingsAffiliated withEuropean Bioinformatics Institute
  • , Pablo MorenoAffiliated withEuropean Bioinformatics Institute
  • , Christoph SteinbeckAffiliated withEuropean Bioinformatics Institute

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Abstract

Chemical proteomics is concerned with the identification of protein targets interacting with small molecules. Hence, the availability of a high quality and free resource storing small molecules is essential for the future development of the field. The Chemical Entities of Biological Interest (ChEBI) database is one such database. The scope of ChEBI includes any constitutionally or isotopically distinct atom, molecule, ion, ion pair, radical, radical ion, complex, conformer, etc., identifiable as a separately distinguishable entity. These entities in question are either products of nature or synthetic products used to intervene in the processes of living organisms. In addition, ChEBI contains a chemical ontology which relates the small molecules with each other thereby making it easier for users to discover data. The ontology also describes the biological roles that the small molecules are active in. The ChEBI database also provides a central reference point in which to access a variety of bioinformatics data points such as pathways and their biochemical reactions; expression data; protein sequence and structures.

Key words

Chemical compound Chemical nomenclature InChI InChIKey IUPAC Molecular entity Ontology Substructure search Similarity search Web Services