1. Semantic Species Taxonomy Shima Izadpanahi CMPE583 Term project

2. OUTLINE  Taxonomy   Platforms  Species taxonomy   Ontology Development   Application

3. Scientific Classification of organisms Taxonomy: is the practice and science of classification. Taxonomy: is the practice and science of classification. Scientific classification: is a method by which biologists group and categorize species of organisms. Scientific classification: is a method by which biologists group and categorize species of organisms. The hierarchy of scientific classification.

4. Classification hierarchy:kingdom kingdom is the highest taxonomic rank. There are six kingdoms (Animalia, Plantae, Fungi, Protoctista, Archaea, and Monera)AnimaliaPlantaeFungi ProtoctistaArchaeaMonera

5. Classification hierarchy, phylum Each kingdom is divided into smaller groups called phylum. phyla can be thought of as grouping animals based on general body plan. Chordata (animals with notochords) and order is Carnivora (mammals that eat meat). Chordata notochordsCarnivora The best known animal phyla are the Mollusca, Porifera, Cnidaria, Platyhelminthes, Nematoda, Annelida, Arthropoda, Echinodermata, and Chordata, the phylum to which humans belong. MolluscaPoriferaCnidaria PlatyhelminthesNematodaAnnelida ArthropodaEchinodermata Chordata

6. Classification hierarchy,Class For example, MammaliaMammalia is the class used in the classification of panthers, whose phylum is Chordata (animals with notochords) andChordata order is Carnivora (mammals that eat meat).Carnivora and family is Felidae (family of cats) and Genus is panthera (the cats ) And species is (panthera pardus)

7. PLATFORMS Protégé: Is Graphical ontology editor, An open source application, Easy to use,Platform independent Java: Platform independent programming environment, Object oriented has Powerful APIs.(JDK 5) JBuilder 2006: IDE for java, Provided by Borland company JSP : For developing dynamic websites Jena: Java API for ontology manipulation, Provided by HP labs, Create and manipulate RDF graphs. (Jena 2.2) RDQL: Ontology query language for Jena (Tomcat server 5.5) Tomcat: web server for handling jsp request (Tomcat server 5.5)

8. Ontology Classes Kingdom : the highest rank in classification phylum : the largest generally accepted groupings of animals and other living things Class : in the scientific classification of organisms in biology below phylum and above order. Order :The order as a distinctive rank of biological classification having its own distinctive name Family : Family, as a rank intermediate between order and genus, is a relatively recent invention. Genus : is a low-level taxonomic rank used in the classification of living and fossil organisms. Specie :a species is one of the basic units of biological classification

9. Taxonomy Object Properties

10. Taxonomy Data type Properties Data type Properties are to bind a value to an individual.

11. Web Site Features: Classification Layer Pages Classification Layer Pages Taxon detail pages Taxon detail pages All entity page All entity page Statistics page Statistics page

12. Query Read description: SELECT ?x SELECT ?x WHERE ( nss:name, nss:hasDescription, ?x) WHERE ( nss:name, nss:hasDescription, ?x) Taxonomy parent: SELECT ?x SELECT ?x WHERE ( nss:name, nss:isPartOfKingdom, ?x) WHERE ( nss:name, nss:isPartOfKingdom, ?x) Read all taxonomic data: SELECT ?x SELECT ?x WHERE ( ?x, ?a, ?b) WHERE ( ?x, ?a, ?b)

13. QUESTIONS? QUESTIONS?