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PIERO Enzyme Reaction Ontology


RCLASS GenomeNet FTP

PIERO stands for "Enzyme Reaction Ontology for annotating Partial Information of chemical transformation", which allows the extraction of partial reaction characteristics (or transformations) of the enzymatic reactions.

SPARQL is a query language that enables the search of the RDF data, which is a data format to exchange machine-understandable information on the Web. See the detail to learn the overview of SPARQL in the W3C Recommendation webpage. Recent years, RDF is gathering more attention in the bioinformatics community to describe various types of data, and some SPARQL endpoints are becoming available (such as those in Uniprot and in EBI)

Below are the list of examples of SPARQL queries using PIERO. Click "Run Query", and the search result will be shown. You can also edit the queries in the textbox.

Step-by-step learning of easy SPARQL Queries using PIERO

  1. Get information from an EC number.


  2. Get information from a KEGG Reaction entry.


  3. Get information from a KEGG Rpair (transformation) entry.


  4. Get KEGG Reaction entries from a KEGG Rpair (transformation) entry.


  5. Get KEGG Reaction entries from a KEGG Rpair (transformation) entry.


  6. Get EC numbers from a KEGG Rpair (transformation) entry.


  7. Get EC numbers from a pair of KEGG Compound entries.


Some more helpful SPARQL Queries

  1. Get reaction(s) from KEGG GENES (hsa:2597)


  2. Get KEGG GENES entries that function as EC2.7


  3. transformation term (cyclization) => Reaction, EC, GO, KEGG annotation


  4. RPAIR (transformation) related to EC 1.2.3


  5. common RPAIR (transformation) for EC 2.3.1.179 and EC 2.3.1.86


  6. Reaction including compound pair (C00003: NAD+, C00027: H2O2) with EC, GO, KEGG annotation


  7. Reaction including C00003(NAD+) but not C00004(NADH), with EC, GO, KEGG annotation


SPARQL Endpoint

Turtle files

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