Glycan Entry Development

Specifications

What’s layout of the new entry page?

• Layout

What’s contents of the entry?

1. Structure (image)
2. Computed Descriptors
   1. WURCS
   2. GlycoCT
   3. IUPAC
3. Species
4. Literature
5. External ID

Species

• using taxonomy data
  • BCSDB, GlycoEpitope, GlycomeDB
• add NCBI taxon link to taxon name
• using taxonomy ontology from DDBJ
  • this ontology including taxon name
• indicate partner name
  • click a partner name, display a partner info

Literature

• using pubmed data
  • BCSDB, GlycoEpitope
• using pubmed RESTfull service
  • this service be used for get title of article
• indicate partner name
  • click a partner name, display a partner info

External ID

• using database id and URL of entry page
• Kinds of database
  • first step
    • BCSDB, GlycoEpitope, PubChem(from GlycoNAVI), GlycomeDB
  • second step
    • JCGGDB(from GlycomeDB), PDBj(from GlycomeDB)
• indicate partner name
  • click a partner name, display a partner info

What’s the data for contents?

Partner RDF

• This rdf include taxonomy, pubmed, external id data from external database
• Partner RDF document

Partner Metadata RDF

• This rdf include partner GRAPH name to indicate origination of the data
• Partner Metadata RDF documment

How to make the contents data?

1. using insert query
   1. partner RDF insert query
   2. partner metadata RDF insert query
2. confirm the RDF dataset using sparql query
   1. confirm query