Dear colleagues,
A reaction by the EN13606 Association in response to:
> a request by the FDA on questions such as "- What are the advantages and
> disadvantages of HL7 v3 and CDISC ODM?"
> And, interestingly, they also ask: "- Are there other open data exchange
> standards that should be eva
Dear All,
One of my colleagues has pointed out this discussion, and I am following
the discussion with great interest. Unfortunately it seems we missed the
meeting, however I read the minutes and the related discussions.
In an FP7 Project named SALUS [1] , we are addressing very similar
prob
On 22 Aug 2012, at 02:07, Mead, Charlie (NIH/NCI) [C] wrote:
> As we dug a bit deeply into this issue and figured out how to define these
> mappings in OWL and make them available at run-time as RDF, it became clear
> that being able to publish -- or at least have the publishable form be
> ac
ERM@KAIPERM
cc da...@dbooth.org, helena.d...@deri.org,
kerstin.l.forsb...@gmail.com, linmd.si...@mcrf.mfldclin.edu,
mea...@mail.nih.gov,
mscottmarsh...@gmail.com, public-semweb-lifesci@w3.org, ratnesh.sa...@deri.org
Subject Re: seeks input on Study Data Exchange
Standards An alternative approach
tha
d...@deri.org, kerstin.l.forsb...@gmail.com,
linmd.si...@mcrf.mfldclin.edu, mea...@mail.nih.gov,
mscottmarsh...@gmail.com, public-semweb-lifesci@w3.org,
ratnesh.sa...@deri.org
Subject
Re: seeks input on Study Data Exchange Standards An alternative approach
thanks Peter.
Just so I'm clear - and m
any attachments without reading, forwarding or saving them.
> Thank you.
>
>
>
>
>
> *David Booth *
>
> 08/21/2012 02:33 PM
> To
> Peter Hendler/CA/KAIPERM@KAIPERM
> cc
> mscottmarsh...@gmail.com, helena.d...@deri.org,
> kerstin.l.forsb...@gmail.com, linmd.si...@m
s without reading, forwarding or saving them.
> Thank you.
>
>
>
> *Conor Dowling *
>
> 08/22/2012 09:34 AM
> To
> Peter Hendler/CA/KAIPERM@KAIPERM
> cc
> da...@dbooth.org, helena.d...@deri.org, kerstin.l.forsb...@gmail.com,
> linmd.si...@mcrf.mfldclin.edu, me
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.
Conor Dowling
08/21/2012 11:54 PM
To
David Booth
cc
Peter Hendler/CA/KAIPERM@KAIPE
/CA/KAIPERM@KAIPERM, helena.d...@deri.org,
> kerstin.l.forsb...@gmail.com, linmd.si...@mcrf.mfldclin.edu,
> mea...@mail.nih.gov, mscottmarsh...@gmail.com,
> public-semweb-lifesci@w3.org, ratnesh.sa...@deri.org
> Subject
> Re: seeks input on Study Data Exchange Standards An alternat
,
public-semweb-lifesci@w3.org, ratnesh.sa...@deri.org
Subject
Re: seeks input on Study Data Exchange Standards An alternative approach
apologies if this is a tangent but why is what's identified as
"extensional" particular to health-care? "Who" said/observed/found/acte
Hi Peter,
It is also possible to store the transitive closure of SNOMED (which can
be created by looping an SQL query until no new relations are inserted)
in a relational database and query it with SQL. The following extract is
a part of an SQL query that retrieves patients who had a colectomy
ng or saving them. Thank you.
>
>
>
>
>
> "Matthias Samwald" (mailto:matthias.samw...@meduniwien.ac.at)>
> 08/22/2012 04:05 AM
>
> To
>
> mailto:mea...@mail.nih.gov)>, Peter
> Hendler/CA/KAIPERM@KAIPERM
>
> cc
>
> mailto:ke
d any attachments without reading, forwarding or
saving them. Thank you.
"Mead, Charlie (NIH/NCI) [C]"
08/22/2012 04:44 AM
To
Matthias Samwald , Peter
Hendler/CA/KAIPERM@KAIPERM
cc
"kerstin.l.forsb...@gmail.com" ,
"public-semweb-lifesci@w3.org"
Subject
RE:
warding or
saving them. Thank you.
"Matthias Samwald"
08/22/2012 04:05 AM
To
, Peter Hendler/CA/KAIPERM@KAIPERM
cc
,
Subject
Re: seeks input on Study Data Exchange Standards
Peter wrote:
> Using both SQL and subsumption you can automatically find things like
this:
> &q
Mead,
Charlie (NIH/NCI) [C]; mscottmarsh...@gmail.com;
public-semweb-lifesci@w3.org; ratnesh.sa...@deri.org
Subject: Re: seeks input on Study Data Exchange Standards An alternative
approach
apologies if this is a tangent but why is what's identified as
"extensional" particular to health-ca
as Samwald [matthias.samw...@meduniwien.ac.at]
Sent: Wednesday, August 22, 2012 7:05 AM
To: Mead, Charlie (NIH/NCI) [C]; peter.hend...@kp.org
Cc: kerstin.l.forsb...@gmail.com; public-semweb-lifesci@w3.org
Subject: Re: seeks input on Study Data Exchange Standards
Peter wrote:
> Using both SQL and subsu
l.com; public-semweb-lifesci@w3.org; ratnesh.sa...@deri.org
Subject: Re: seeks input on Study Data Exchange Standards An alternative
approach
apologies if this is a tangent but why is what's identified as "extensional"
particular to health-care? "Who" said/observed/found/
Peter wrote:
> Using both SQL and subsumption you can automatically find things like this:
> "find all disorders that are a kind of adverse drug reaction where drug is a
> subtype of antibiotic and was given for a kind of gram negative bacterial
> infection of the digestive system".
Simple sub
apologies if this is a tangent but why is what's identified as
"extensional" particular to health-care? "Who" said/observed/found/acted
"What", "When" and "Where" is surely a general notion. Does it need a
health-care model or ontology? Yes, particular findings or observations or
procedures can be
On Tue, 2012-08-21 at 15:11 -0700, peter.hend...@kp.org wrote:
> [ . . . ] Can you use RDF in a closed world way when ever you want,
> or is it only safe when the model you're dealing with, like FHIR,
> really is known to be closed world?
>
I think so, provided that you understand that you are m
ng them. Thank you.
"Mead, Charlie (NIH/NCI) [C]"
08/21/2012 02:54 PM
To
Kerstin Forsberg ,
"public-semweb-lifesci@w3.org"
cc
Subject
RE: seeks input on Study Data Exchange Standards
Totally agree. The more we can show people the advantages of SW
representations, th
..@mcrf.mfldclin.edu,
mea...@mail.nih.gov, public-semweb-lifesci@w3.org, ratnesh.sa...@deri.org
Subject
Re: seeks input on Study Data Exchange Standards An alternative approach
Hi Peter,
Very nice observations! I wholeheartedly agree with your basic thesis,
but I would quibble with one o
ifesci@w3.org
Subject: Re: seeks input on Study Data Exchange Standards
Great discussion in the meeting today and on the email list: BRIDG/OWL,
FHIR/SW, Extensional and Intensional /" design-time" and "run-time" models, ...
a lot of interesting things seems to converge for h
Hi Peter,
Very nice observations! I wholeheartedly agree with your basic thesis,
but I would quibble with one off-hand remark . . .
On Tue, 2012-08-21 at 08:47 -0700, peter.hend...@kp.org wrote:
> Sorry I didn't make the meeting but just looked at the minutes.
>
> We (Kaiser) do use the Ontol
, 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.
Kathrin Dentler
0
Great discussion in the meeting today and on the email list: BRIDG/OWL,
FHIR/SW, Extensional and Intensional /" design-time" and "run-time" models,
... a lot of interesting things seems to converge for how to model patient
data.
At the same time I think it would be useful to explore a RDF impleme
Hi Peter,
Just my two cents: Having read your white paper, I find your
separation into the "What", i.e. the terminological model
(intensional), and the "When, Who, Where, Why", i.e. the
context/information model (extensional), very useful and intuitive.
In y
rstin.l.forsb...@gmail.com"
, "linmd.si...@mcrf.mfldclin.edu"
, "mscottmarsh...@gmail.com"
, "public-semweb-lifesci@w3.org"
, "ratnesh.sa...@deri.org"
Subject
RE: seeks input on Study Data Exchange Standards An alternative approach
forsb...@gmail.com;
linmd.si...@mcrf.mfldclin.edu; mscottmarsh...@gmail.com;
public-semweb-lifesci@w3.org; ratnesh.sa...@deri.org
Subject: RE: seeks input on Study Data Exchange Standards An alternative
approach
Actually design-time and run-time is even better than what I said. Let's use
t
uot;
, "linmd.si...@mcrf.mfldclin.edu"
, "mscottmarsh...@gmail.com"
, "public-semweb-lifesci@w3.org"
, "ratnesh.sa...@deri.org"
Subject
RE: seeks input on Study Data Exchange Standards An alternative approach
Hi Peter --
Agree --and I think I un
emweb-lifesci@w3.org; ratnesh.sa...@deri.org
Subject: RE: seeks input on Study Data Exchange Standards An alternative
approach
We are in fact talking about two different things.
If you are talking about how to more easily create new FHIR resources, and to
assure their correct mapping to the RIM th
in.l.forsb...@gmail.com;
linmd.si...@mcrf.mfldclin.edu; public-semweb-lifesci@w3.org; Sahay,
Ratnesh; Eric Prud'hommeaux
Subject: RE: seeks input on Study Data Exchange Standards An alternative
approach
Hi Peter --
I haven't read the notes of today's discussion, but since I was the one
that su
t; ,
"linmd.si...@mcrf.mfldclin.edu" ,
"public-semweb-lifesci@w3.org" ,
"ratnesh.sa...@deri.org" , "Eric Prud'hommeaux"
Subject
RE: seeks input on Study Data Exchange Standards An alternative approach
Hi Peter --
I haven't read the notes of toda
d.si...@mcrf.mfldclin.edu; Mead, Charlie (NIH/NCI) [C];
public-semweb-lifesci@w3.org; ratnesh.sa...@deri.org
Subject: Re: seeks input on Study Data Exchange Standards An alternative
approach
Sorry I didn't make the meeting but just looked at the minutes.
We (Kaiser) do use the Ontology feature
Sorry I didn't make the meeting but just looked at the minutes.
We (Kaiser) do use the Ontology features of SNOMED extensively and have a
different take on how it should be done.
Specifically we would not advocate for example, putting FHIR in RDF or
OWL. What we've fount to be simple, useful,
.hend...@kp.org
Cc: ratnesh.sa...@deri.org; kerstin.l.forsb...@gmail.com;
linmd.si...@mcrf.mfldclin.edu; mea...@mail.nih.gov;
mscottmarsh...@gmail.com; public-semweb-lifesci@w3.org
Subject: Re: seeks input on Study Data Exchange Standards
Dear all,
The best time for the telco appears to be tomorrow
quot;Deus, Helena"
> , "M. Scott Marshall"
> cc
> Peter Hendler/CA/KAIPERM@KAIPERM, , "Kerstin
> Forsberg" , , "HCLS hcls"
>
> Subject
> RE: seeks input on Study Data Exchange Standards
>
>
>
>
>
> Regarding Peter’s con
3
To: Deus, Helena
Cc: Sahay, Ratnesh; peter.hend...@kp.org; linmd.si...@mcrf.mfldclin.edu;
kerstin.l.forsb...@gmail.com; mea...@mail.nih.gov;
public-semweb-lifesci@w3.org; Fox, Ronan
Subject: Re: seeks input on Study Data Exchange Standards
Hi Helena,
Good initiative all.
Would you pleas
gt; Lena
>
>
>
> From: M. Scott Marshall [mailto:mscottmarsh...@gmail.com]
> Sent: 17 August 2012 13:33
> To: Deus, Helena
> Cc: Sahay, Ratnesh; peter.hend...@kp.org; linmd.si...@mcrf.mfldclin.edu;
> kerstin.l.forsb...@gmail.com; mea...@mail.nih.gov;
> public-s
edu;
> kerstin.l.forsb...@gmail.com; mea...@mail.nih.gov;
> public-semweb-lifesci@w3.org; Fox, Ronan
> *Subject:* Re: seeks input on Study Data Exchange Standards
>
> ** **
>
> Hi Helena,
>
> ** **
>
> Good initiative all.
>
> ** **
>
> Would
at require long
discussion.
Regards,
Ratnesh
From: peter.hend...@kp.org [mailto:peter.hend...@kp.org]
Sent: 15 August 2012 16:18
To: linmd.si...@mcrf.mfldclin.edu
Cc: kerstin.l.forsb...@gmail.com; mea...@mail.nih.gov;
public-semweb-lifesci@w3.org
Subject: RE: seeks input on Study Data Exchang
; ** **
> *From:* peter.hend...@kp.org [mailto:peter.hend...@kp.org]
> *Sent:* 15 August 2012 16:18
> *To:* linmd.si...@mcrf.mfldclin.edu
> *Cc:* kerstin.l.forsb...@gmail.com; mea...@mail.nih.gov;
> public-semweb-lifesci@w3.org
> *Subject:* RE: seeks input on Study Data Exchange Standards
>
> Regards,
> Ratnesh
>
> From: peter.hend...@kp.org [mailto:peter.hend...@kp.org]
> Sent: 15 August 2012 16:18
> To: linmd.si...@mcrf.mfldclin.edu
> Cc: kerstin.l.forsb...@gmail.com; mea...@mail.nih.gov;
> public-semweb-lifesci@w3.org
> Subject: RE: seeks input on
...@gmail.com]
Sent: Friday, August 17, 2012 2:25 AM
To: Mead, Charlie (NIH/NCI) [C]; Eric Prud'hommeaux; Michel Dumontier
Cc: HCLS hcls
Subject: Re: seeks input on Study Data Exchange Standards
Great to see the feedback from several people on this list with interesting
references.
Charlie,
representation will almost certainly
> benefit from this effort.
>
> charlie
>
> From: Kerstin Forsberg [kerstin.l.forsb...@gmail.com]
> Sent: Wednesday, August 15, 2012 1:57 AM
> To: HCLS hcls
> Subject: FDA: seeks input on Study Da
org]
Sent: 15 August 2012 16:18
To: linmd.si...@mcrf.mfldclin.edu
Cc: kerstin.l.forsb...@gmail.com; mea...@mail.nih.gov;
public-semweb-lifesci@w3.org
Subject: RE: seeks input on Study Data Exchange Standards
Just did a white paper on it. I don't think it's a good idea in general
t
From: Kerstin Forsberg [kerstin.l.forsb...@gmail.com]
Sent: Wednesday, August 15, 2012 1:57 AM
To: HCLS hcls
Subject: FDA: seeks input on Study Data Exchange Standards
FDA seeks "input from industry, technology vendors, and other members of the
public regarding the advantage
stin Forsberg
, HCLS hcls
cc
Subject
RE: seeks input on Study Data Exchange Standards
Great topic! I can imagine a potential white paper from this group.
Besides technology, factors to consider might include: flexibility,
implementation cost, return on investments, path to migrat
gumz.crys...@mcrf.mfldclin.edu
715-221-6403
-Original Message-
From: Mead, Charlie (NIH/NCI) [C] [mailto:mea...@mail.nih.gov]
Sent: Wednesday, August 15, 2012 1:02 AM
To: Kerstin Forsberg; HCLS hcls
Subject: RE: seeks input on Study Data Exchange Standards
I would say Yes
r --
> using SW approaches...and the BRIDG OWL representation will almost
> certainly benefit from this effort.
>
> charlie
>
> From: Kerstin Forsberg [kerstin.l.forsb...@gmail.com]
> Sent: Wednesday, August 15, 2012 1:57 AM
> To: H
http://www.deri.ie/about/team/member/ratnesh_sahay/
-Original Message-
From: Mead, Charlie (NIH/NCI) [C] [mailto:mea...@mail.nih.gov]
Sent: 15 August 2012 07:02
To: Kerstin Forsberg; HCLS hcls
Subject: RE: seeks input on Study Data Exchange Standards
I would say Yes -- particularly s
From: Kerstin Forsberg [kerstin.l.forsb...@gmail.com]
Sent: Wednesday, August 15, 2012 1:57 AM
To: HCLS hcls
Subject: FDA: seeks input on Study Data Exchange Standards
FDA seeks "input from industry, technology vendors, and other members of the
public regarding the advantage
FDA seeks "input from industry, technology vendors, and other members of the
public regarding the advantages and disadvantages of current and emerging open,
consensus-based standards for the exchange of regulated study data. "
In the annoncement for a meeting 5 November FDA ask for responses, b
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