Download Semantic Query Answering

Web Based Semantic Query
Answering of Yeast Knowledge
Michel Dumontier, Alexander De Leon Battista,
Natalia Villanueva-Rosales
ISMB2007: HCLS BOF
yOWL:
A semantic web knowledge base for yeast scientists
yOWL Ontology

YOWL
– 244 classes
– 38 defined
– 57 object properties
– 11 data properties
– 22 annotation

Coverage
– structural and
functional
chromosome features
– database cross
references
– GO
– molecular function
– cellular component
– biological process
–
–
–
–
interactions
pathways
phenotypes
literature
http://ontology.dumontierlab.com/yOWL-primitive
Ontology
Initially devised from the data
Augmented with expert knowledge
Semantic Query Answering:
DL Query
Find pathway participants that are also physical interaction
participants.
Defined Classes:
PathwayParticipant
isParticipantIn some Pathway
PhysicalInteractionParticipant
isParticipantIn some PhysicalInteractionExperiment
Semantic Query Answering:
Broad Query
Conjunctive query
Variable Binding
Ontology Integration
Find genes/proteins with transferase activity that are part of a
complex, have rescued a non-viable phenotype by overexpression
and have a known role in some pathway. Retrieve the genes,
sources, pathways, experiments, chromosome and complex that
satisfy these requirements.
http://smart.dumontierlab.com