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RHEA
RHEA is a database of biochemical reactions, initially populated with
data from IntEnz.
Its motivations and specification can be found in the
IntEnz documentation web site.
Goals
- Use of a controlled vocabulary
(ChEBI)
for referencing every chemical compound in IntEnz.
Existing reactions in IntEnz - stored as free text - would be parsed to
extract and map every compound, validating stoichiometry.
- Unique identity for every reaction in IntEnz. One reaction could be
referenced by several different EC numbers, avoiding redundancy in the
database.
- Having unique identifiers for reactions, a new identifier for enzymes
based on the catalyzed reactions could be built. This new ID would be
completely independent from the EC classification.
- Being unique, RHEA reactions can be linked from/to other reaction
databases: Reactome, KEGG reaction, SABIO...
- Portability: reactions should be easy to import/export in
common formats. To this end, BioPAX
has been chosen.
Subprojects
The main RHEA subproject is the active development of a
reaction ontology,
requested independently by different people during the meetings held
to gather requirements and suggestions about the projected IntEnz reaction
database.
Among the existing reaction ontologies,
REX
has been chosen to this end.
In order to manage this and other ontologies,
MONTY
was conceived as a user friendly, multiuser system.
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