1 / 23

switch on Webex

switch on Webex. Examples of new ontologies using BFO. Actionable Intelligence Retrieval System (AIRS) US Transcom (Transportation Command) Enterprise Ontology ( http://www.securboration.com/ ) Mental Functioning Ontology (MFO), Emotion Ontology (MFO-EM) Financial Report Ontology: FRO

hastin
Télécharger la présentation

switch on Webex

An Image/Link below is provided (as is) to download presentation Download Policy: Content on the Website is provided to you AS IS for your information and personal use and may not be sold / licensed / shared on other websites without getting consent from its author. Content is provided to you AS IS for your information and personal use only. Download presentation by click this link. While downloading, if for some reason you are not able to download a presentation, the publisher may have deleted the file from their server. During download, if you can't get a presentation, the file might be deleted by the publisher.

E N D

Presentation Transcript

  1. switch on Webex

  2. Examples of new ontologies using BFO • Actionable Intelligence Retrieval System (AIRS) • US Transcom (Transportation Command) Enterprise Ontology (http://www.securboration.com/) • Mental Functioning Ontology (MFO), Emotion Ontology (MFO-EM) • Financial Report Ontology: FRO • here BFO (and IAO) must be under the hood

  3. FMA: BFO under the hood

  4. Blue Force Overwatch The Plant Ontology

  5. cROP: Common Reference Ontologies for Plants

  6. Role of BFO in OBO Foundry • OBO Foundry and related suites of ontologies will work only if their component ontologies are orthogonal • Orthogonality can be established only if these ontologies are comparable • BFO is at the core of the strategy to ensure compatibility

  7. BFO issues • process qualities • rate is a determinate • specific rate is a determinable • differences are clinically significant • only defined down to a specific level of granularity

  8. id: HP:0001943 ! Hypoglycemia = = decreased concentration of glucose in the blood • intersection_of: PATO:0001163 ! decreased concentration • intersection_of: qualifier PATO:0000460 ! abnormal • intersection_of: towards CHEBI:17234 ! glucose • intersection_of: inheres_in FMA:9670 ! Portion of blood Class: Hypoglycemia ≡ decreased concentration & towards some glucose & inheres_in some portion of blood & qualifier some 'abnormal‘ P. Robinson: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3224779/ http://www.ncbi.nlm.nih.gov/pubmed/23104991

  9.  HP:0001720 ! tachycardia Process: GO:0060048 cardiac muscle contractionQuality: PATO:0000912 increased rate PATO:Rate =def. A quality of a single process inhering in a bearer by virtue of the bearer's occurrence per unit time logically: rate(r,p) =def. p is a process & p consists of a sequence of similar sub-processes & these sub-processes repeat r times per unit time Note that there is no reference to a quality or to inherence here

  10. Tachycardi • Thus Tachycardia only exists if there is the sort of cyclical repetition of cardiac muscle contraction that is involved in the heart's beating.Thus Tachycardia is not a rate of cardiac muscle contraction, but rather a rate of cardiac muscle contraction repetition.

  11. Treatment of ‘process qualities’ • ‘BFO:quality’ just means: a quality of an independent continuant • PATO:process-quality uses 'quality' in a different sense; providing this sense is well-defined, there is no objection to its use. Unfortunately most PATO:process-quality terms are currently poorly defined. The hope is that use of BFO 2.0 can help to bring improvements.

  12. rate (rough version) rate(r,p) =def. p is a process & p consists of a sequence of similar sub-processes & these sub-processes repeat r times per unit time increased-rate(r,p) = def. p is such that r is greater than a certain normal threshold (defined for each particular kind of patient)There are numbers here, and time units, and thresholds for numbers.

  13. But there are no extra entities called ‘process qualities’ • If we observe that there are 3 apples in a bowl on Wednesday and 2 apples in the same bowl on Thursday, then we could express this by saying that the apples in the bowl had the quality of threeness on Wednesday and the quality of twoness on Thursday. • People could talk like that if they wanted, butit would be ontologically much less adequate than just the assertion underlined above.

  14. Similarly, if we observe that there is a 63 bpm heart rate in a patient on Wednesday and 102 bpm heart rate in the same partient on Thursday, then we could express this by saying that the heart beat process of the patient had the quality of sixtythree-bpm-ness on Wednesday and ofonehundredandtwo-bpm-ness on Thursday. People could talk like that if they wanted, butit would be ontologically much less adequate than just the assertion underlined above/ • 63bpm  Wednesday and 102 bpm in the same patient on Thursdayi.e. more beats per minute on Thursday

  15. What BFO is designed to do • BFO is not intending to constrain what people say, merely to provide a formally coherent basis for definitions (for example in PATO). • Given this basis, it should be possible to define all the terms one needs, including all the terms one needs from PATO.

  16. Which general terms refer to universals? For some general terms X we can formulate definitions of the following sort:(C) Collection of X’s =def. collection of particulars of type X.How do we determine whether for (C) holds of a given term ‘X’? This is the job of scientists, in an on-going process of terminology evolution through which those terms come to be selected for that are fit to serve in successive formulations of the corresponding scientific theory.

  17. Which general terms refer to universals? Each scientific theory as it exists at any given stage will likely be marked by (as yet unidentified) terminologically relevant errors, and these errors will accordingly be carried over into the corresponding ontology. Hence, we cannot embrace any one-one correspondence between scientific general terms and universals in reality. Rather, we should assume, for heuristic purposes only, that at any given stage the terms used by scientists in a given discipline refer to universals, knowing full well that this assumption may be false for any given term.

  18. Qualities determinable and determinate temperature blood pressure mass ... are continuants they exist through time while undergoing changes

  19. Qualities temperature / blood pressure / mass ... are dimensions of variation within the structure of the entity; a quality is something which can change while its bearer remains one and the same

  20. A Chart representing how John’s temperature changes

  21. Qualities temperature / blood pressure / mass ... are dimensions of variation within the structure of the entity; a quality is something which can change while its bearer remains one and the same hence only independent continuants may have qualities

  22. John’s temperature the temperature John has throughout his entire life, cycles through different determinate temperatures from one time to the next John’s temperature is a physiology variable which, in thus changing, exerts an influence on other physiology variables through time

  23. temperature 37ºC 37.1ºC 37.2ºC 37.3ºC 37.4ºC 37.5ºC instantiates at t1 instantiates at t2 instantiates at t3 instantiates at t4 instantiates at t5 instantiates at t6 John’s temperature

More Related