ontology in buffalo barry smith. 2 ontology (phil.) the science of being ontologies (tech.)...
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Ontology (phil.) The science of being
Ontologies (tech.)Standardized classification systems which enable data from different sources to be combined and applied to new uses
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Google hits Mar. 2007 (in millions)
ontology 14.2
ontology + philosophy 1.2
ontology + data 5.0
ontology + medicine 1.3
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where in the body ? where in the cell ?
what kind of disease process ?
how create humanly intelligible + logically tractable systems for annotating data?
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Pleural Cavity
Pleural Cavity
Interlobar recess
Interlobar recess
Mesothelium of Pleura
Mesothelium of Pleura
Pleura(Wall of Sac)
Pleura(Wall of Sac)
VisceralPleura
VisceralPleura
Pleural SacPleural Sac
Parietal Pleura
Parietal Pleura
Anatomical SpaceAnatomical Space
OrganCavityOrganCavity
Serous SacCavity
Serous SacCavity
AnatomicalStructure
AnatomicalStructure
OrganOrgan
Serous SacSerous Sac
MediastinalPleura
MediastinalPleura
TissueTissue
Organ PartOrgan Part
Organ Subdivision
Organ Subdivision
Organ Component
Organ Component
Organ CavitySubdivision
Organ CavitySubdivision
Serous SacCavity
Subdivision
Serous SacCavity
Subdivision
part
_of su
btyp
e
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US Government Insurance Ontology:
A house contains as part: information about an air conditioning system
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US Government Life Events Taxonomy
Aging Birth Child care Death Divorce Marriage Parenting Retirement Schooling Teenagers
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HL7 (Health Level 7)
every activity is identical with its own documentation
a disease is an act of observationa diagnosis is an observation of an observation
a person is an entity which represents a living subject with an identity document
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Philosophers should not interfere with the sciences
But now computer scientists are interfering in science all the time, and the result is proving a disaster
sometimes involving billions of dollars of wasted investment
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Ontology (science)develops theories of the types of entities
existing in a given domain of reality and of the relations between these types
+ ways of testing such theories
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quid? substance quantum? quantity quale? qualityad quid? relationubi? placequando? timein quo situ? status/contextin quo habitu? habitusquid agit? actionquid patitur? passion
What is a System?
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BS consultant to:
Cleveland Clinic (Cardiovascular Surgery Ontology)
Gene Ontology ConsortiumDuke University Medical School Functional Genomics Investigation Ontology
(FugO)German Ministry of Health World Health Organization
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Resources for Graduate Students
$60,000+ Graduate Fellowships: NSF IGERT grant ($6 mill.)
Humboldt Foundation, Volkswagen Foundation and EU: Graduate Stipendia for Research in Germany ($4.9 mill.)
NIH Protein Ontology: Training workshops ($0.3 mill.)
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National Center for Biomedical Ontology$18.8 mill. NIH Roadmap Center
• Stanford Medical Informatics• University of San Francisco Medical Center• Berkeley Drosophila Genome Project• Cambridge University Department of Genetics• The Mayo Clinic• University at Buffalo Department of Philosophy
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UB2020
Bioinformatics Center
$100,000 for Signature Center in Ontological Research
$1 million start-up funds for new Director of Bioinformatics