- From: Kashyap, Vipul <VKASHYAP1@PARTNERS.ORG>
- Date: Wed, 16 Apr 2008 11:25:14 -0400
- To: "Oniki, Tom (GE Healthcare, consultant)" <Tom.Oniki@ge.com>, "Samson Tu" <swt@stanford.edu>, <rector@cs.man.ac.uk>
- Cc: <public-semweb-lifesci@w3.org>, <public-hcls-coi@w3.org>
- Message-ID: <DBA3C02EAD0DC14BBB667C345EE2D1240236D739@PHSXMB20.partners.org>
Thanks for the clarification Tom, Based on your discussion below, I would propose that first two aspects belong to the information model layer whereas the record of that care probably belongs to the implementation details/data types and structures of the information model? ________________________________ From: Oniki, Tom (GE Healthcare, consultant) [mailto:Tom.Oniki@ge.com] Sent: Thursday, April 10, 2008 11:28 AM To: Samson Tu; Kashyap, Vipul; rector@cs.man.ac.uk Cc: public-semweb-lifesci@w3.org; public-hcls-coi@w3.org Subject: RE: An argument for bridging information models and ontologies at the syntactic level It seems like we're having difficulty getting to a point where we can see if we agree or not. Let me attempt to further a convergence by drilling down on what Alan said earlier about the 3 levels of medicine, giving my thoughts/interpretation: * Pathophysiology - what we know about the patient * A patient may have hypertension * The patient actually has to have some certain "kind" or "subtype" of hypertension, e.g., "labile diastolic hypertension" - no patient simply has "hypertension" * The patient's hypertension has a severity, e.g., "mild" * In this realm, the severity is mandatory - *every* instance of hypertension has a severity * A patient has a heart rate, and the heart rate has a value, e.g., "60 bpm" * In this realm, every patient has a heart rate and every heart rate has a value, even if it's "0" * Clinical care - what we do to the patient based on our assessments of the pathophysology of the patient * I'm not sure if Alan is deliberately saying that this "clinical care" level addresses actions taken *based on* assessments/observations, but that assessements/observations themselves *do not* fall into this category, but belong elsewhere (in the "record" category below?) * Regardless, I'm sure he's saying that assessments/observations must be regarded separately from the pathophysiology realm above. * For the sake of this drill-down, I'll assume observations/measurements/assessments fall into this "clinical care" category. * Here we have a "hypertension" observation/finding/diagnosis. * A hypertension observation may be a subclass of a more generic "observation" * It *makes reference to* the "hypertension" of the pathophysiologic realm above, but is not equivalent to that hypertension. * One may observe that a patient has "hypertension", even though, as noted above, no patient actually has "hypertension", but must have some particular subtype of hypertension. (Or maybe at this level we would say the observation still has to be of a certain type of hypertension, and it's only at the next level - the record of care - that we're permitted to say the patient has generic "hypertension"?) * We may also observe the severity of the hypertension, i.e., a severity observation is an observation about the hypertension's severity described above in the pathophysiology realm. * One can make a hypertension observation without making a severity observation although, as stated earlier, in the pathophysiologic realm, every hypertension has a severity. * Here we have a "heart rate measurement" * We measure the heart rate at a location, e.g., the left wrist * Every heart rate measurement has a location - you can't measure the heart rate without measuring it at a location * The value of the heart rate measurement might not be the "true" value of the (pathophysiologic) heart rate, but we accept it as an approximation * The record of that care and those assessments * At this level, the hypertension record and the heart rate record speak of RIM- or Archetype- or Clinical Element Model-specific data structures. * It models from data capture/data exchange/data retrieval use cases, which differs from the above levels * e.g., it allows a heart rate measurement without a measurement location, even though in reality every heart rate measurement is taken from some location. * Significantly, it is here that codes and code systems are introduced -- the records reference these codes and code systems, which as Alan says are "meta" to the pathophysiology realm above, i.e., they're data structures that attempt to represent that realm. Look forward to your comments. Tom ________________________________ From: public-hcls-coi-request@w3.org [mailto:public-hcls-coi-request@w3.org] On Behalf Of Samson Tu Sent: Wednesday, April 09, 2008 11:41 PM To: Kashyap, Vipul Cc: public-semweb-lifesci@w3.org; public-hcls-coi@w3.org Subject: Re: An argument for bridging information models and ontologies at the syntactic level On Apr 8, 2008, at 6:50 PM, Kashyap, Vipul wrote: Fundamentally, the only interpretation that works is to regard codes as being "meta" to the ontology. I.e. the individuals in the ontology are things in the conceptualisation of the world - cases of diabetes, people, livers, etc. - individual codes represent classes in the ontology. [VK] Agree. Codes represent classes in some ontology or information model. IMHO, codes don't represent classes in some information model. An information model has classes like Observation, whose instances are clinical statements made by some entity (person or machine). I think information model is "meta" in the sense that its instances are statements (The observation that "John has diabetes") about something that happens in the real world (the person named John has an instance of Diabetes). In BFO term, the observation is an instance of information-content-entity, as opposed to an assertion about the John instance of Person and an instance of Diabetes. The entire information structure - HL7 or Archetypes - in fact, is at a meta-level. [VK] Agree with this. In particular, the HL7/RIM has a very confusing construction. It could be viewed as a meta-model but then it also has fields to store patient data, For e.g., one may view a class of lab values, say HbA1c as an instance of the RIM Observation class (making it a meta-class), however, the RIM Observation class also has the value field for the value of those labs and is in some sense a multi-layered representation, which is probably why it is so confusing. I don't understand how a class of HbA1c can be an instance of the RIM Observation class. I don't see how the Observation class having the value field is the issue. Samson The information transmitted in this electronic communication is intended only for the person or entity to whom it is addressed and may contain confidential and/or privileged material. Any review, retransmission, dissemination or other use of or taking of any action in reliance upon this information by persons or entities other than the intended recipient is prohibited. If you received this information in error, please contact the Compliance HelpLine at 800-856-1983 and properly dispose of this information.
Received on Wednesday, 16 April 2008 15:26:03 UTC