W3C home > Mailing lists > Public > public-semweb-lifesci@w3.org > October 2012

Re: An HL7 RIM navigation language based on SPARQL?

From: <Peter.Hendler@kp.org>
Date: Tue, 2 Oct 2012 10:54:04 -0700
To: me@jerven.eu
Cc: eric@w3.org, helena.deus@deri.org, kerstin.l.forsberg@gmail.com, LINMD.SIMON@mcrf.mfldclin.edu, meadch@mail.nih.gov, mscottmarshall@gmail.com, public-semweb-lifesci@w3.org, ratnesh.sahay@deri.org
Message-ID: <OF3D79067A.FB7964B4-ON88257A8B.0061FBA7-88257A8B.0062558C@kp.org>
It's because clinicians will balk at the URIs.  The DSL would have the 
same logic exaclty but all resource names and URIs would have to be 
replaced with obvious business names.
Clinicians complain if they don't see exactly what they want it called. 

How do I know?  I've been working on Kaiser's CMT (Convergent Medical 
Terminology) system since 1995.  Our clinicians will not settle for SNOMED 
preferred names, nor ICD names.  They want their own familiar terms.  We 
have a local clinician interface term for everything.  In the background 
we map to SNOMED.

You can get them to understand triplets, but you can't make them look at 
Resource names or URIs.









NOTICE TO RECIPIENT:  If you are not the intended recipient of this 
e-mail, you are prohibited from sharing, copying, or otherwise using or 
disclosing its contents.  If you have received this e-mail in error, 
please notify the sender immediately by reply e-mail and permanently 
delete this e-mail and any attachments without reading, forwarding or 
saving them.  Thank you.






Jerven Bolleman <me@jerven.eu> 
10/02/2012 10:37 AM

To
Peter Hendler/CA/KAIPERM@KAIPERM
cc
meadch@mail.nih.gov, eric@w3.org, helena.deus@deri.org, 
kerstin.l.forsberg@gmail.com, LINMD.SIMON@mcrf.mfldclin.edu, 
mscottmarshall@gmail.com, public-semweb-lifesci@w3.org, 
ratnesh.sahay@deri.org
Subject
Re: An HL7 RIM navigation language based on SPARQL?






Hi All,

Is SPARQL to difficult to teach to clinicians? I personally think its not. 
What is difficult to explain is the data model (especially a HL7 
compatible one.)

Explaining a simple select once they understand triples is easy.

I love_my work = simple sentence = subject predicate object
<ch.linkedin.com/in/jervenbolleman> <
http://dictionary.reference.com/browse/love> <
http://beta.sparql.uniprot.org> = replace words by uri's

<ch.linkedin.com/in/jervenbolleman> <
http://dictionary.reference.com/browse/love> ?thingHeLoves = uri's by a 
variable starting with a ?

Wrap in select

select 
?thingHeLoves 
where
{
      <ch.linkedin.com/in/jervenbolleman> <
http://dictionary.reference.com/browse/love> ?thingHeLoves 
}
find 
<http://beta.sparql.uniprot.org>

This basic concept is easily explainable in an afternoon. You will need at 
least as much time to introduce any DSL as well. 
The problem remains the HL7 data model. If you can explain that to anyone 
in an afternoon you are my hero ;) and your DSL will need to fight that as 
well. In which case it would be better to spend you time rewriting the HL7 
data model into something that matches a clinicians model of his world. 
You would need reasoning and/or rules to do so.

The benefit of sparql will be the capability to work with excell and or 
tab delimited files that the clinician already has. Using for example 
bio-table and the SPARQL 1.1. service keyword.

Regards,
Jerven

PS. I couldn't find an URI to identify my wife so had to fudge the example 
;)
On Tue, Oct 2, 2012 at 7:15 PM, <Peter.Hendler@kp.org> wrote:
Mainly for Charlie and Eric but anyone who knows RIM. 

There has been talk off and on for ever about a Domain Specific Language 
for navigating RIM like graphs of data.  Seems to me SPARQL can already do 
that. 
But SPARQL is too much to teach clinicians.  So you could have a RIM 
specific DSL that is like a RIMQL.  It could be nothing more than a thin 
layer on top of SPARQL. 

The clinician writes a RIMQL query, and it turns into SPARQL.  There's no 
reason you couldn't do that with HL7 FHIR either. 









NOTICE TO RECIPIENT:  If you are not the intended recipient of this 
e-mail, you are prohibited from sharing, copying, or otherwise using or 
disclosing its contents.  If you have received this e-mail in error, 
please notify the sender immediately by reply e-mail and permanently 
delete this e-mail and any attachments without reading, forwarding or 
saving them.  Thank you.





-- 
Jerven Bolleman
me@jerven.eu


picture
(image/jpeg attachment: 01-part)

picture
(image/jpeg attachment: 02-part)

Received on Tuesday, 2 October 2012 17:55:03 UTC

This archive was generated by hypermail 2.4.0 : Friday, 17 January 2020 17:21:17 UTC