Table 1

XML Tags

Ontology Term Mark-up


General Format


<named-content content-type="biolit" id="ncbo_id=X;term_id=Y:Z;term=Q;url=http://H">

Q

</named-content>


Example with data


<named-content

content-type="biolit" id="ncbo_id=38436;term_id=CL:0000031;term=neuroblast;url=http://bioportal.bioontology.org/

visualize/39004">

neuroblast

</named-content>


Note: url=http://HHHis optional


Database Identifier Mark-up


General Format


<ext-link xlink:href="http://linktodatabase" ext-link-type="databaselabel">

DATABASEID

</ext-link>


Example with data


<ext-link xlink:href=http://www.rcsb.org/pdb/explore/explore.do?structureId=1MU2

ext-link-type="pdb">

1MU2

</ext-link>


Semantic data are marked up using tags from the NLM DTD http://dtd.nlm.nih.gov/ webcite. The <named-content/> and <ext-link/> tags are used for ontology terms and database identifiers, respectively.

Fink et al. BMC Bioinformatics 2010 11:103   doi:10.1186/1471-2105-11-103

Open Data