•        0

Chemical Entities of Biological Interest (ChEBI) is a freely available database of chemical compounds and other small molecular entities.



Related Projects


Rhea is a reaction database, where all reaction participants are linked to the ChEBI database (Chemical Entities of Biological Interest). Rhea provides built-in validations that ensure both mass and charge balance of the reactions.

Chemical-compound-repository - a repository of chemical compounds, better known as the Chemical Tran

AboutThis is a grails based project which trys to combine several chemical databases together. This includes pubchem-compound pubchem-substance kegg ncidb hmdb chebi binbase As primary ID we decided to use the std inchi code. Since it can be easily generated using the jni-inchi library. The software is available in the svn repository, but the database content has to be acquired from the related sources. You can access a life instance of this software here Project Owner/MaintainerGert Wohlgemuth

Chebi-intact-das-servers - Development DAS servers for ChEBI and IntAct

Temporary Project for new DAS services for the IntAct project and the ChEBI project.

Micluster - Molecular interactions cluster

Micluster provides funtionality to cluster molecular interactions based on the PSI-MI TAB format. Clustering is performed by matching interacting molecule pairs using a predefined set of database cross references and aliases. It matches interactor molecules based on standard identifiers such as uniprotkb, refseq, rogid and/or chebi. Micluster recognises groups of evidences of the same interaction merging redundant annotations and keeping new information. The cluster can provide clustered data in

Pharmgkb-owl - PharmGKB in OWL and connections to other resources and ontologies

In this project, we develop an OWL representation of the data in PharmGKB, Comparative Toxicogenomics Database (CTD) and DrugBank. The data is integrated with the ChEBI ontology, the Human Disease Ontology (DO), the Anatomical Therapeutic Chemical Classification System (ATC) and the Medical Subject Headings Thesaurus (MESH). The combined knowledge base can be exploited using the ELK reasoner. Furthermore, we develop the OntoFUNC tool to assist in the analysis of the integrated databases, and we

Chem-fingerprints - Cheminformatics fingerprint file formats and tools

(chemfp for short) is a set of formats and related tools for the storage, exchange, and search of cheminformatics fingerprint data sets. Download chemfp-1.1b4.tar.gz. Note: this is a source distribution. Precompiled installers will be coming as soon as I can figure out how to make them. Cheminformatics FingerprintThe chem-fingerprints (chemfp) project goals are to define and promote common file formats for storing and exchanging cheminformatics fingerprint data sets, and to develop tools which w

Sbmlharvester - Creates an OWL representation of SBML models using a combination of MIRIAM annotatio

OverviewUser GuideIncluded resourcesRepresented systems biology resourcesSoftware and ontologiesUpper level ontologySBML HarvesterQuickstartRequirementsRunning the HarvesterWeb interfacePublicationContact and support OverviewThe SBML Harvester creates a complex ontology-based representation of SBML models, utilizing both the structure of the SBML model and the models' MIRIAM annotations. This representation can then be used for the consistency verification of SBML models as well as complex queri


Java library to automatically link a chebi compound/identifier to a metabolic pathway or genes from the tomato genome.

BiNChE - Enrichment analysis of molecular structures based on the ChEBI ontology.

Enrichment analysis of molecular structures based on the ChEBI ontology.


"Chemical Entities of Biological Interest (ChEBI) is a freely available dictionary of molecular entities focused on ‘small’ chemical compounds."