Category Archives: ontology

SIFR project Ontology and web semantic

The SIFR project investigate the scientific and technical challenges in building ontology-based services to leverage biomedical ontologies.

My work is on the the annotators web service which purpose it to:

  1. Provide a unique access point to several server running the ontology annotators developed by the NCBO, such as their bioportal.bioontology.org/annotator.
  2. Wrap new functionalities around these annotators. In particular I work on adding RDF output format and the annotation scoring methods which have been published in

RSML The language of root architecture

With several of the main actors in root system measurement and analysis, we have develop the RSML file format. It allows to store 2D or 3D image metadata, plant and root properties and geometries, continuous functions along individual root paths and a suite of annotations at the image, plant or root scales, at one or several time points. The plant ontologies are used to describe botanical entities that are relevant at the scale of root system architecture.

Go to the RSML web site