class-class relations with no instance level equivalents about bfo HOT 4 OPEN

From [email protected] on October 18, 2007 14:35:10

has_integral_part can be construed as a macro-level type thing and/or dispensed with
at the instance level

transformation_of is different. Definition and comment from RO reproduced below. If
this is a macro, what does it expand to?

def: "Relation between two classes, in which instances retain their identity yet
change their classification by virtue of some kind of transformation. Formally: C
transformation_of C' if and only if given any c and any t, if c instantiates C at
time t, then for some t', c instantiates C' at t' and t' earlier t, and there is no
t2 such that c instantiates C at t2 and c instantiates C' at t2." [PMID:15892874]

comment: When an embryonic oenocyte (a type of insect cell) is transformed into a
larval oenocyte, one and the same continuant entity preserves its identity while
instantiating distinct classes at distinct times. The class-level relation
transformation_of obtains between continuant classes C and C1 wherever each instance
of the class C is such as to have existed at some earlier time as an instance of the
distinct class C1 (see Figure 2 in paper). This relation is illustrated first of all
at the molecular level of granularity by the relation between mature RNA and the
pre-RNA from which it is processed, or between (UV-induced) thymine-dimer and thymine
dinucleotide. At coarser levels of granularity it is illustrated by the
transformations involved in the creation of red blood cells, for example, from
reticulocyte to erythrocyte, and by processes of development, for example, from larva
to pupa, or from (post-gastrular) embryo to fetus or from child to adult. It is also
manifest in pathological transformations, for example, of normal colon into
carcinomatous colon. In each such case, one and the same continuant entity
instantiates distinct classes at different times in virtue of phenotypic changes.

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From [email protected] on October 19, 2007 07:14:45

By macro, I did not intend to imply that a macro expansion into the current version of OWL would be sufficient.
Rather that the shape of the instance level axioms tend to vary widely from class relation to class relation.

You correctly point out that transformation of can't be represented in OWL currently, assuming that we don't
switch, (for the OWL representation) to a time slice representation. Note that it may be possible to do so without
changing the underlying ontology, rather looking at this as an encoding of the ontology.

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From [email protected] on May 07, 2012 07:45:30

Need to review for currency wrt current draft reference.

Labels: -Type-Defect Type-BFO2-Reference

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From [email protected] on May 07, 2012 21:37:13

Status: Review-old-issue

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