All data in Rhea is freely accessible and available for download from our FTP site:


Reactions are available in several data formats:

  • BioPAX level 2
    This is a community standard data exchange format for biological pathway data in an OWL RDF/XML serialization. It covers the core Rhea data types. Some aspects of the Rhea model can't be expressed in BioPax (e.g. residues of Rhea generic compounds or polymerization indexes of Rhea polymers) and are added as "bp:COMMENT".
  • RXN
    This is a MDL CT file format that represents unidirectional processes. For this reason, bidirectional reactions and reactions with undefined directions cannot be described in this format.
  • RD
    This is a MDL CT file format that consists of a set of records, each of them defining a reaction - in RXN format - and any associated data.

Reaction participants

Information about the chemical entities that participate in Rhea reactions is available in the following files:

  • chebiId_name.tsv: A list of the participants (ChEBI small molecules only) that are used in Rhea reactions as a tab-separated values file with the columns 1) participant ID, 2) participant name.
  • The chebi.owl file is a snapshot of ChEBI matching the Rhea (and UniProt) release cycle. This data can also be queried directly at the Rhea SPARQL endpoint.


Rhea cross-references to other databases are available as tab-separated values (tsv) files:

All Rhea tsv files (except UniProtKB/TrEMBL) can be downloaded in a single archive: rhea-tsv.tar.gz