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icbo.buffalo/2011/slides

http://icbo.buffalo.edu/2011/slides. BFO 2.0 Proposal. Barry Smith 7/28/2011. BFO 2 Editors ’ Version BFO 2 OWL. The basic idea: BFO 2 Editors’ Version will guide implementations and further development Working with BFO 2 OWL will ensure consistency with BFO 2 Editors’ Version.

yael-fitzgerald
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icbo.buffalo/2011/slides

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  1. http://icbo.buffalo.edu/2011/slides

  2. BFO 2.0 Proposal Barry Smith 7/28/2011

  3. BFO 2 Editors’ VersionBFO 2 OWL The basic idea: • BFO 2 Editors’ Version will guide implementations and further development • Working with BFO 2 OWL will ensure consistency with BFO 2 Editors’ Version

  4. BFO 2 OWL End August: new release of BFO in OWL 2 DL • new URIs conformant with OBO Foundry • relations included with domains and ranges (see below) • defining relation expressions needed for OBO Foundry use • e.g. has_plasma_membrane_part a linguistic shortcut (macro) for talking about parts of plasma membrances

  5. Region Terms • We will document a strategy for using BFO region terms,requiring in each case the specification of a frame of reference.

  6. Top level relations incorporated into BFO We will incorporate into BFO the upper-level relations in RO needed to make BFO relationally self-contained. We will document a procedure whereby new relation expressions (shortcuts) can be defined using the relation-resources in BFO 2. We will create a repository where they can be curated and made available for re-use by others (to ensure interoperability).

  7. Issues For example: a quality_of b = a inheres_in b and a is_a quality Users are encouraged to submit their own relational shortcuts in this way, to create Spatial Extensions, Temporal Extensions …

  8. Numerical values and assertions about processes We will document a strategy for annotating or regimenting data involving numerical values and assertions about processes. *** Intuition: if you have 3 apples in a box, you do not have 4 first-class entities: the 3 apples, plus the number 3. Analogously: if you have a process that is a 3bpm-process, then you do not have 2 first-class entities: the process, plus the 3bpm.

  9. IAO:measurement datum is_about concretized_by quality: John’s blood glucose level has_specified _output quality: ‘120 mg/dL’-shaped pattern inheres_in OBI process: this specific assay portion of blood participates_in inheres_in derived_from participates_in device screen part_of John Numerical Value Example

  10. IAO:measurement datum is_about concretized_by process: John’s heart beating has_specified _output quality: ‘120 mg/dL’-shaped pattern has_participant OBI process: this specific assay has_participant inheres_in device screen has_part has_participant Process Predication Example John

  11. Device or human ear … is in each case a reliable means of arriving at information of the relevant sort This means: • 1. it has been built according to an evolutionary stable or specified process • 2. it matches the other instances of the same type produced as outputs of this process • 3. the information produced as output by other instances of this type has been positively tested for accuracy

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