Re: Proposed agenda for Nov 18 HL7 ITS RDF / W3C HCLS COI call

Excellent!  Thanks for the synopsis, and I'm glad you are able to 
contribute.

David

On 11/19/2014 08:07 AM, Tim.Williams@ucb.com wrote:
> David,
>
> Thank you for the minutes and sorry I could not attend this week.
>
> I am a member of one of the PhUSE working groups mentioned by
> Kerstin.   This is our somewhat outdated Wiki page:
> http://www.phusewiki.org/wiki/index.php?title=Analysis_Results_Model
>
> We recently adopted the RDF Data Cube as our model and are working on
> an R package for data conversion. We are already using the SDTM as
> RDF to form code lists for our cube. Our current focus is on
> conversion of Demographics and AE data, then expanding to other
> domains. It was a member of our group that recently presented to
> CDISC.
>
> I am also a member of the newly-formed PhUSE working group that is
> coordinating the end-to-end connectivity for the outputs from our
> various PhUSE Semantic Web Technology efforts.
>
> The PhUSE CSS conference will take place in March in Silver Spring
> Maryland where there is an increasing focus on SW tech.
> http://www.phuse.eu/css.aspx
>
> All of this is just for an FYI.  I am on vacation next week and may
> not be able to make the next meeting, though I look forward to
> future participation
>
> Best Regards,
>
> Tim
>
> -----Original Message----- From: David Booth
> [mailto:david@dbooth.org] Sent: Tuesday, November 18, 2014 2:52 PM
> To: its@lists.hl7.org; w3c semweb HCLS Cc: Claude Nanjo; Eric
> Prud'hommeaux Subject: Re: Proposed agenda for Nov 18 HL7 ITS RDF /
> W3C HCLS COI call
>
> Draft minutes are at http://www.w3.org/2014/11/18-hcls-minutes.html
> and in plain text below.
>
> --------------------------------------------------------- [1]W3C
>
> [1] http://www.w3.org/
>
> - DRAFT -
>
> HL7 ITS RDF Subgroup / W3C HCLS
>
> 18 Nov 2014
>
> See also: [2]IRC log
>
> [2] http://www.w3.org/2014/11/18-hcls-irc
>
> Attendees
>
> Present Brian_Pech, Bryn_Rhodes, David_Booth, EricPrud'hommeaux,
> Ingeborg, Joshua_Phillips, Kerstin_Forsberg, Marc_Twagirumukiza,
> Paul_Knapp, Rob_Hausam, Tony_Mallia, Daniel_Karlsson, Vassil
>
> Regrets Chair David Booth (and Paul Knapp)
>
> Scribe ericP
>
> Contents
>
> * [3]Topics 1. [4]Minutes 2. [5]previous minutes 3. [6]Logistics 4.
> [7]Followup on last week's discussion with Mark Musen 5. [8]Proposed
> work items 6. [9]FHIR ontology 7. [10]ICD-11 and SNOMED 8.
> [11]Bridging VA, Intermountain and other models 9. [12]Issue
> tracking 10. [13]Use Cases 11. [14]PhUSE-FDA project (formerly
> CDISC2RDF) 12. [15]C-CDA RDF representations 13. [16]High-level
> concept mapping to RDF (AR typeCodes, etc.) 14. [17]Other work
> proposed work items * [18]Summary of Action Items
> __________________________________________________________
>
> <Marc_Twagirumukiza> Hi every one this is Marc Twagirumukiza from
> Agfa Healthcare
>
> Minutes
>
> <dbooth>
> [19]http://wiki.hl7.org/index.php?title=ITS_RDF_ConCall_Agenda#
> Agenda
>
> [19]
> http://wiki.hl7.org/index.php?title=ITS_RDF_ConCall_Agenda#Agenda
>
> <dbooth> ITS page: [20]http://wiki.hl7.org/index.php?title=ITS_WG
>
> [20] http://wiki.hl7.org/index.php?title=ITS_WG
>
> <dbooth> RDF subgroup:
> [21]http://wiki.hl7.org/index.php?title=ITS_RDF_ConCall_Agenda#
> Agenda
>
> [21]
> http://wiki.hl7.org/index.php?title=ITS_RDF_ConCall_Agenda#Agenda
>
> <dbooth> Meeting minutes:
> [22]http://www.w3.org/2014/11/04-hcls-minutes
>
> [22] http://www.w3.org/2014/11/04-hcls-minutes
>
> previous minutes
>
> <scribe> scribenick: ericP
>
> pknapp: PROPOSED to accept
> [23]http://www.w3.org/2014/11/04-hcls-minutes as a record of the last
> meeting
>
> [23] http://www.w3.org/2014/11/04-hcls-minutes
>
> Logistics
>
> APPROVED: accept [24]http://www.w3.org/2014/11/04-hcls-minutes as a
> record of the last meeting
>
> [24] http://www.w3.org/2014/11/04-hcls-minutes
>
> (unanimous)
>
> dbooth: two wiki choices or this HL7/W3C joint work ... which shall
> we use for administative stuff? ... other work, e.g. FHIR ontology,
> can be on another wiki
>
> <Marc_Twagirumukiza> I support HL7 wiki as well
>
> dbooth: but for the admin stuff i propose that HL7 host the
> adminstrative wiki
>
> PROPOSED use the HL7 wiki as the administrative wiki
>
> APPROVED: use the HL7 wiki as the administrative wiki
>
> (unanimous)
>
> -> [25]https://www.w3.org/wiki/HCLS/ClinicalObservationsInteropera
> bility COI Task Force
>
> [25]
> https://www.w3.org/wiki/HCLS/ClinicalObservationsInteroperability
>
> ericP
>
> Followup on last week's discussion with Mark Musen
>
> ericP: note the tech topics, e.g. FDA therapeutic areas, terminfo,
> etc.
>
> <dbooth> The recording:
> [26]https://www.dropbox.com/sh/d7a9bb6ppqgo9xn/AAApWheLsxRSyEKF
> a0Kr4qNna?dl=0
>
> [26]
> https://www.dropbox.com/sh/d7a9bb6ppqgo9xn/AAApWheLsxRSyEKFa0Kr4qNna?dl=0
>
>  dbooth: any followup on Mark's presentation?
>
> <dbooth> Rough notes: [27]http://www.w3.org/2014/11/11-hcls-minutes
>
> [27] http://www.w3.org/2014/11/11-hcls-minutes
>
> Tony: following up with MarkM on the details hidden by the ICAT
> interface.
>
> <dbooth> ACTION: Tony to find out more details about how iCat handles
> ICD-11 ont and report back [recorded in
> [28]http://www.w3.org/2014/11/18-hcls-minutes.html#action01]
>
> <Zakim> ericP, you wanted to point out the snomed examples in the FDA
> TA work
>
> -> [29]https://www.w3.org/wiki/File:Snomedct_extract_descriptive.t tl
> SNOMED example
>
> [29] https://www.w3.org/wiki/File:Snomedct_extract_descriptive.ttl
>
> <dbooth> Eric: If you're digging into this, here's an example of
> SNOMED that I took, and found all of the examples of everything that
> they said about it -- level in the cell, test results, in range, out
> of range. All the entities that SNOMED teases apart. It would be
> great to take the same slice of ICD-11
>
> <daniel> There is a new way of representing lab in SNOMED CT as of
> recently
>
> <dbooth> ... Not a legit SNOMED extraction though, because I changed
> the nubmers to human readable URLs.
>
> Tony: i've got the 110M SNOMED snapshot from earlier this year.
>
> <dbooth> David: Might be a good use case!
>
> ericP: you shouldn't have to dig back into the 110M 'cause i already
> did that
>
> Tony: still waiting for access details from MarcM ... I've been
> looking at the bits that i've already dug into, e.g. allergies to bee
> stings
>
> <daniel> Here's an alpha version of new lab content
>
> <Marc_Twagirumukiza> ...just to disambiguate it's Mark
>
> <daniel> Daniel Karlsson
>
> <daniel> [30]https://csfe.aceworkspace.net/sf/go/doc10215?nav=1
>
> [30] https://csfe.aceworkspace.net/sf/go/doc10215?nav=1
>
> daniel: there's a new style for SNOMED
>
> Tony: is there a style guide you can point to? ... once we dig down
> into the details of the ontologies, you're sucked in for 2 years
>
> <daniel> daniel.karlsson@liu.se
>
> Proposed work items
>
> dbooth: we have lots of potential work items and limited resources
> ... we can persue multiple things but it will depend on the
> individual champions.
>
> FHIR ontology
>
> <Marc_Twagirumukiza> I would volunteer in the FHIR ontology, --- just
> as related work to what we did for SALUS project
>
> <Marc_Twagirumukiza>
> [31]http://www.srdc.com.tr/projects/salus/blog/?p=342
>
> [31] http://www.srdc.com.tr/projects/salus/blog/?p=342
>
> dbooth: claude nanjo and ericP have worked on this. we should
> schedule reviews
>
> Tony: we discussed this in the HCLS COI call ... the issues were what
> models for what use cases and how to build the ontology
>
> dbooth: on one end of the spectrum there's "what ontology facilitates
> machine transformation" ... on the other, "what ontology facilitates
> humen understanding"
>
> Tony: there's also which supports SemWeb inference ... we may want to
> bring these together or maybe not
>
> Marc_Twagirumukiza: reusable graphs need to be human-readable,
> machine-readable, etc. ... we did this for SALUS, "entities" were RDF
> graphs at the domain level. we could map it to other data. ... so
> hoping to contribute to this task
>
> <dbooth> Eric: I can present what Josh and I did.
>
> dbooth: so you're stressing the convergence
>
> <dbooth> Claude's work attempted to be more human friendly.
>
> ericP: i can present the stuff that Josh and I did
>
> <Marc_Twagirumukiza> Actually what can help there is not to 'just'
> ontologyze FHIR but to build up a partitioned reusable domain RDF
> graphs from the complexe information model
>
> <Marc_Twagirumukiza> those will be a key for converging and mapping
> as well
>
> dbooth: claude did an ontology as well
>
> Tony: i can present what i did at VA
>
> <dbooth> ACTION: Tony and Eric to work with each other and Claude to
> prepare comparison of FHIR ontology approaches [recorded in
> [32]http://www.w3.org/2014/11/18-hcls-minutes.html#action02]
>
> <dbooth> My view is that the *most* important is an ontology that
> works well for machine processing -- instance data translation,
> inference, etc. That needs to be the basis. Then making it more human
> friendly -- or conceptually understandable -- would be nice to have.
>
> dbooth: priority should be machine processing
>
> Tony: agree. "reasoner-friendly" ... something we can use with
> existing tools
>
> ICD-11 and SNOMED
>
> dbooth: we discussed this earlier.
>
> Bridging VA, Intermountain and other models
>
> Tony: depends on what MarkM can give me. i have no access to the
> bits.
>
> <dbooth> David: Not a current work project. Create a wiki page for
> project ideas backlog?
>
> dbooth: maybe we should create a backlog page
>
> Tony: rep from VA would be rafael (not on this call)
>
> Marc_Twagirumukiza: sometimes the backlog becomes a brainstorming
> place with no followup.
>
> <dbooth> ACTION: David to create a wiki page for backlog [recorded
> in [33]http://www.w3.org/2014/11/18-hcls-minutes.html#action03]
>
> Marc_Twagirumukiza: but very necessary, also needs an issue tracker
>
> Issue tracking
>
> <dbooth> Eric: W3C Tracker is integrated with IRC
>
> ericP: we can start with tracker, which will work with IRC and
> public-semweb-lifesci
>
> Use Cases
>
> <dbooth> ACTION: ericP to send pointers to existing wiki pages
> [recorded in
> [34]http://www.w3.org/2014/11/04-hcls-minutes.html#action01] [DONE]
>
> [34] http://www.w3.org/2014/11/04-hcls-minutes.html#action01]
>
> <dbooth> (Eric already pointed to the W3C COI page)
>
> dbooth: what use cases with what goals?
>
> <dbooth> Eric: Migration of CCDA to FHIR
>
> <dbooth> Eric: Utility on FHIR RDF that would motivate mapping of
> FHIR XML to FHIR RDF
>
> dbooth: need different levels of use cases ... need one simple enough
> for a slide, e.g. BP ... it would be nice if they could be used
> across different purposes.
>
> PhUSE-FDA project (formerly CDISC2RDF)
>
> Kerstin_Forsberg: know the CDISC2RDF. can work on this.
>
> Ingeborg: i know SDTM quite well
>
> <Kerstin_Forsberg> kerstin.l.forsberg@astrazeneca.com
>
> <Ingeborg> ingeborgholt@gmail.com
>
> <dbooth> ACTION: Kerstin and Ingeborg to prepare a status and future
> state ideas for PhUSE-FDA work [recorded in
> [35]http://www.w3.org/2014/11/18-hcls-minutes.html#action05]
>
> <dbooth> Kerstin and Ingeborg have volunteered to champion the
> PhUSE-FDA work.
>
> ericP: our use cases for FDA-TA were to: ... .. make different
> studies in the same therapeutic area compatible for safety and
> efficacy analysis ... .. make e.g. drugs in differnt TAs comparable
> for safety signals
>
> C-CDA RDF representations
>
> <dbooth> ACTION: Eric to establish/make a wiki page for C-CDA RDF
> representations work [recorded in
> [36]http://www.w3.org/2014/11/18-hcls-minutes.html#action06]
>
> dbooth: ericP is champion
>
> Joshua_Phillips: i'd like to work on this.
>
> <dbooth> ACTION: Eric and Joshua to report on C-CDA RDF
> representations work plan [recorded in
> [37]http://www.w3.org/2014/11/18-hcls-minutes.html#action07]
>
> High-level concept mapping to RDF (AR typeCodes, etc.)
>
> Tony: this is kind of light-weight. ... "how do you represent the
> terminology?" ... from the top down, identify topics, e.g. transport
> mechanisms
>
> <Kerstin_Forsberg> FDA/PhUSE Semantic technology project's first
> delivery was "just" to represenet existing CDISC foundational
> standards in RDF. Not representing the actual clinical trial data
> (e.g. blood pressure). Hwoever, they are moving beyond that and I
> know there was a presentation from FRDA at CDISC Interchannge
> conference last week on representing CDASH (raw data such as blood
> pressure) in RDF.
>
> Tony: it's a style guide. a set of patterns.
>
> -> [38]https://www.w3.org/wiki/HCLS/ClinicalObservationsInteropera
> bility/TerminologyExpressivity high-level terminology approaches
>
> [38]
> https://www.w3.org/wiki/HCLS/ClinicalObservationsInteroperability/TerminologyExpressivity
>
>  <Kerstin_Forsberg> There is also a FDA/PhUSE subproject to
> reperesent analysis results data, e.g. avg. blood pressure for
> propulation reported in a study report
>
> dbooth: if there's already a wiki, use it.
>
> <dbooth> David: I would caution that there can be so many different
> views on high level models, adoption/use would have to be voluntary.
> I would worry about being perceived as telling people how that they
> MUST do things. But best practices recommendations sound great.
>
> -> [39]https://www.w3.org/wiki/HCLS/ClinicalObservationsInteropera
> bility/FDATherapeuticAreaOntologies#Coding_specificity terminology
> coding example
>
> [39]
> https://www.w3.org/wiki/HCLS/ClinicalObservationsInteroperability/FDATherapeuticAreaOntologies#Coding_specificity
>
>  Tony: i'll list the topics. some may be black holes
>
> RobHausam_: i'm interested.
>
> <dbooth> Rob Hausam
>
> <dbooth> ACTION: Tony and Rob to report their plan on High-level
> concept mapping to RDF work [recorded in
> [40]http://www.w3.org/2014/11/18-hcls-minutes.html#action08]
>
> Other work proposed work items
>
> RobHausam_: want to look at the interface between terminology and
> infor model
>
> <dbooth> Rob: Propose Term info work
>
> <dbooth> Eric: Charlie Mead and I created a wiki page on that
>
> <daniel> I'm in
>
> <dbooth> ACTION: Tony and all to decide on a wiki for Term Info work
> [recorded in
> [41]http://www.w3.org/2014/11/18-hcls-minutes.html#action09]
>
> <dbooth> ADJOURNED
>
> Summary of Action Items
>
> [NEW] ACTION: David to create a wiki page for backlog [recorded in
> [42]http://www.w3.org/2014/11/18-hcls-minutes.html#action03] [NEW]
> ACTION: Eric and Joshua to report on C-CDA RDF representations work
> plan [recorded in
> [43]http://www.w3.org/2014/11/18-hcls-minutes.html#action07] [NEW]
> ACTION: Eric to establish/make a wiki page for C-CDA RDF
> representations work [recorded in
> [44]http://www.w3.org/2014/11/18-hcls-minutes.html#action06] [NEW]
> ACTION: Kerstin and Ingeborg to prepare a status and future state
> ideas for PhUSE-FDA work [recorded in
> [45]http://www.w3.org/2014/11/18-hcls-minutes.html#action05] [NEW]
> ACTION: Tony and all to decide on a wiki for Term Info work [recorded
> in [46]http://www.w3.org/2014/11/18-hcls-minutes.html#action09] [NEW]
> ACTION: Tony and Eric to work with each other and Claude to prepare
> comparison of FHIR ontology approaches [recorded in
> [47]http://www.w3.org/2014/11/18-hcls-minutes.html#action02] [NEW]
> ACTION: Tony and Rob to report their plan on High-level concept
> mapping to RDF work [recorded in
> [48]http://www.w3.org/2014/11/18-hcls-minutes.html#action08] [NEW]
> ACTION: Tony to find out more details about how iCat handles ICD-11
> ont and report back [recorded in
> [49]http://www.w3.org/2014/11/18-hcls-minutes.html#action01]
>
> [DONE] ACTION: ericP to send pointers to existing wiki pages
> [recorded in
> [50]http://www.w3.org/2014/11/04-hcls-minutes.html#action01]
>
> [50] http://www.w3.org/2014/11/04-hcls-minutes.html#action01
>
> [End of minutes]
> __________________________________________________________
>
>
> Minutes formatted by David Booth's [51]scribe.perl version 1.140
> ([52]CVS log) $Date: 2014-11-18 17:10:56 $
> __________________________________________________________
>
> [51] http://dev.w3.org/cvsweb/~checkout~/2002/scribe/scribedoc.htm
> [52] http://dev.w3.org/cvsweb/2002/scribe/
>
> Scribe.perl diagnostic output
>
> [Delete this section before finalizing the minutes.] This is
> scribe.perl Revision: 1.140  of Date: 2014-11-06 18:16:30 Check for
> newer version at [53]http://dev.w3.org/cvsweb/~checkout~/2002/
> scribe/
>
> [53] http://dev.w3.org/cvsweb/~checkout~/2002/scribe/
>
> Guessing input format: RRSAgent_Text_Format (score 1.00)
>
> Succeeded: s/inference/transformation/ Succeeded: s/issue track/issue
> tracker/ Found ScribeNick: ericP Inferring Scribes: ericP Default
> Present: DBooth, EricP, +1.604.250.aaaa, +1.678.999.aabb, +1.202
> .528.aadd, PaulKnapp, +1.703.983.aaee, Marc_Twagirumukiza, BrianPech,
> Jo shua_Phillips, +1.801.368.aaff, BrynRhodes, +1.978.794.aagg,
> +1.608.310. aahh, Tony, Vassil, +1.801.949.aaii, Kerstin_Forsberg
> Present: Brian_Pech Bryn_Rhodes David_Booth EricPrud'hommeaux
> Ingeborg J oshua_Phillips Kerstin_Forsberg Marc_Twagirumukiza
> Paul_Knapp Rob_Hausam Tony_Mallia Daniel_Karlsson Vassil Got date
> from IRC log name: 18 Nov 2014 Guessing minutes URL:
> [54]http://www.w3.org/2014/11/18-hcls-minutes.html People with action
> items: all david eric ingeborg joshua kerstin rob ton y
>
> [54] http://www.w3.org/2014/11/18-hcls-minutes.html
>
>
> [End of [55]scribe.perl diagnostic output]
>
> [55] http://dev.w3.org/cvsweb/~checkout~/2002/scribe/scribedoc.htm
>
>
>
> On 11/17/2014 06:12 PM, David Booth wrote:
>> Proposed agenda for tomorrow (Tuesday):
>> http://wiki.hl7.org/index.php?title=ITS_RDF_ConCall_Agenda
>>
>> Logistics: Tuesdays, 11:00am Eastern US (Boston) time zone Zakim
>> (W3C teleconference bridge). Dial-In #: +1.617.761.6200 (Cambridge,
>> MA) VoIP address: sip:zakim@voip.w3.org Participant Access Code:
>> 4257 ("HCLS") IRC: irc.w3.org port 6665 channel #HCLS
>>
>> Thanks, David Booth
>
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Received on Wednesday, 19 November 2014 14:10:41 UTC