14:59:57 <RRSAgent> RRSAgent has joined #hcls
14:59:57 <RRSAgent> logging to http://www.w3.org/2012/08/23-hcls-irc
15:00:02 <matthias_samwald> zakim, this is hcls
15:00:03 <Zakim> hcls matches both SW_HCLS(TMO)11:00AM and SW_HCLS()11:00AM, matthias_samwald
15:00:07 <matthias_samwald> zakim, who is here?
15:00:14 <Zakim> sorry, matthias_samwald, I don't know what conference this is
15:00:16 <Zakim> On IRC I see RRSAgent, Zakim, matthias_samwald, egonw, MacTed, ericP
15:00:27 <matthias_samwald> zakim, this is SW_HCLS()
15:00:27 <Zakim> ok, matthias_samwald; that matches SW_HCLS()11:00AM
15:00:34 <matthias_samwald> zakim, who is here?
15:00:35 <Zakim> On the phone I see +1.510.705.aaaa, +1.720.708.aabb
15:00:43 <Zakim> On IRC I see RRSAgent, Zakim, matthias_samwald, egonw, MacTed, ericP
15:01:07 <achille_zappa> achille_zappa has joined #hcls
15:01:44 <Zakim> +BobF
15:01:58 <bobP> bobP has joined #hcls
15:02:02 <matthias_samwald> zakim, who is here?
15:02:02 <Zakim> On the phone I see +1.510.705.aaaa, +1.720.708.aabb, BobF
15:02:08 <Zakim> On IRC I see bobP, achille_zappa, RRSAgent, Zakim, matthias_samwald, egonw, MacTed, ericP
15:02:42 <Zakim> +ericP
15:02:48 <Zakim> +Bob_Powers
15:03:33 <matthias_samwald> people report that they are  in this IRC chatroom, but nobody else is there
15:03:36 <matthias_samwald> strange...
15:03:47 <ericP> mibbit probs
15:03:58 <ericP> use irc.w3.org intstead
15:04:39 <ericP> ack me
15:05:14 <ericP> Zakim, who is here?
15:05:14 <Zakim> On the phone I see +1.510.705.aaaa, +1.720.708.aabb, BobF, ericP, Bob_Powers
15:05:19 <Zakim> On IRC I see bobP, achille_zappa, RRSAgent, Zakim, matthias_samwald, egonw, MacTed, ericP
15:08:55 <matthias_samwald> Example of current modelling approach: http://samwald.info/res/pharmacogenomic_CDS_precoordinated_4_test.owl
15:09:02 <BobF> BobF has joined #HCLS
15:09:08 <matthias_samwald> Example of current modelling approach: http://samwald.info/res/pharmacogenomic_CDS_precoordinated_4_test.owl
15:10:47 <ericP> ack me
15:12:42 <matthias_samwald> http://trowl.eu/
15:18:05 <Zakim> -ericP
15:18:32 <Zakim> +ericP
15:21:36 <ericP> scribenick: ericP
15:21:46 <ericP> matthias_samwald: OWL working out well
15:21:54 <ericP> ... finding inconsistencies in input data
15:22:27 <mscottm> mscottm has joined #hcls
15:22:32 <ericP> ... sometimes have to e.g. exchange C/G or A/T in the PharmGKB polymorphisms
15:23:24 <ericP> ericP: null hypothesis, can you use SPARQL?
15:23:35 <ericP> matthias_samwald: not trivial to use SPARQL alone -- started doing that
15:25:17 <ericP> ... because of performance or completeness issues, i may migrate some of the DL inference to SPARQL rules
15:26:29 <Zakim> + +31.62.427.aacc
15:26:44 <ericP> ... working in OWL, you can continue to use OWL for design-time
15:26:44 <mscottm> Zakim, +31.62.427.aacc is mscottm
15:26:44 <Zakim> +mscottm; got it
15:27:00 <ericP> ... but for CDS algorithms, implement as SPARQL rules.
15:27:20 <ericP> ... (where you need results in e.g. 5 seconds)
15:27:43 <mscottm> why 5 seconds?
15:28:27 <ericP> ... CDS messages are aournd 5s
15:29:32 <ericP> ... there are studies about how physicians use decision support when e.g. placing order
15:29:41 <ericP> ... results showed that 20s was too late
15:30:28 <mscottm> 1+ to what BobF just said
15:31:03 <ericP> BobF: given time-scale, it might not be possible to use real-time reasoning if it takes more than .5 sec (Mayo cutoff)
15:31:51 <ericP> ... may need to compile overnight
15:32:42 <ericP> ... .. when using the reasoner to go from genotype to called alleles (the long part of the job)
15:32:56 <ericP> matthias_samwald: spectrum:
15:33:13 <ericP> ... .. enter raw SNP data and get results AFAP
15:33:56 <ericP> ... .. everything is pre-computed and e.g. physician enters a medication and gets the pre-compiled inferences
15:33:59 <ericP> ... .
15:35:56 <ericP> ... scenario for the former: in medicine safety codes, raw SNP data is scannable from a 2D barcode which physician scans and uses when prescribing
15:37:19 <ericP> BobP: this might be a business case, where a service compiles SNPs into alleles overnight, available when the bearer of the SNPs shows up in the hospital
15:40:14 <ericP> topic: HL7 standards for clinical genomics
15:40:32 <ericP> matthias_samwald: working with @@1 who's active in Hl7 genomics
15:40:44 <mscottm> IHE = Integrating the Healthcare Enterprise
15:40:52 <ericP> ... he's working with a consortium to create an IHE
15:41:03 <Zakim> + +1.410.550.aadd
15:41:46 <ericP> ... the draft from @@1 is heavily focused on HL7 and CDA
15:41:54 <ericP> ... but there is a mention of ontologies, etc.
15:41:54 <mscottm> IHE has indeed focused on XML rather than RDF until now.
15:43:06 <mscottm> Cecil Lynch?
15:43:16 <mscottm> Lloyd MacKenzie??
15:45:52 <ericP> rafael richards: anaesthesia group is using ontologies
15:46:41 <ericP> ... we still ballot in spreadsheets
15:46:44 <mscottm> Raphael Richards, anesthesiologist, prof at Hopkins, anesthesiology group working on data dictionary (DD?) at HL7
15:47:38 <ericP> ... the idea is that a patient brings a key with their context
15:47:51 <ericP> ... i'm working on a CCR CCD extension
15:48:29 <ericP> ... (HL7 is trying to tack functionality onto a 35-year-old broadcast-only protocol)
15:49:20 <mscottm> Richard: 1 to 5 physician groups are the market not big hospitals, with patients moving between them.
15:49:25 <Zakim> -ericP
15:49:31 <Zakim> +ericP
15:49:52 <mscottm> ..Big hospitals know how to take care of themselves and run HL7, etc.
15:50:01 <ericP> matthias_samwald: experience with pharmacogenomics in HL7?
15:50:17 <ericP> bobF: coming from data integration for research purposes
15:50:30 <ericP> ... not necessarily for drugs [and CDS]
15:51:07 <ericP> ... in our standard EHRs, we don't have genetics available
15:51:10 <BobF> (bobF isn't speaking right now)
15:51:34 <ericP> ... at the transition of care, i just want problem lists, medications, history, allergies
15:51:54 <ericP> ... all pubmed publications show this is where the prob is
15:52:19 <mscottm> Richard: Same problems in transfer all the time: reliable transfer of medication, allergy, problem lists, history, ..
15:52:32 <ericP> ... stale data is useless in a hospital where the half-life of data is 24hrs
15:52:42 <ericP> ... almost valueless for decision-making
15:52:53 <ericP> ... we need to inject the word "real-time"
15:53:10 <ericP> ... we need to federate and follow the patient
15:53:26 <ericP> ... big EHRs in big hospitals are growing
15:53:38 <ericP> ... but we need to integrate outside the hospital
15:54:12 <ericP> ... CCR/CCD in RDF would be a great starting point
15:54:27 <ericP> ... want to integrate two small hospitals
15:56:49 <ericP> BobF: i've been keeping track of the HL7 clinical genomics. haven't been integrated with the OWL work
15:57:22 <ericP>   connected to HL7, eg chats with Mollie Ullman
15:58:29 <ericP> ... Genetic Test Report Group has been working with LOINC to code value sets as responses to "LOINC questions".
15:58:43 <ericP> ... e.g. was the sampled tissue normal or ...
15:59:16 <ericP> ... or "is your predicated enzyme level going to be {high,medium,low} activity?"
15:59:25 <ericP> ... but no SNPs
16:00:27 <ericP> ... so they have LOINC data about the front end (tissue samples), and the back end (predicated results), but missing the middle
16:00:31 <mscottm> So, they are missing the provenance information that would help you evaluate their interpretation (such as the predicted enzyme level).
16:00:57 <ericP> matthias_samwald: so it would be good to use LOINC
16:01:11 <ericP> ... ... for e.g. the phenotype
16:01:28 <ericP> ... we don't really care about the test procedures
16:03:13 <mscottm> Richard Raphael works with Conor Dowling and David Booth. (!)
16:03:36 <BobF> bobf needs to drop off - bye all
16:03:41 <Zakim> -BobF
16:03:47 <ericP> BobF, tx kindly
16:04:08 <ericP> all, i'd be happy to get feedback/edits to http://www.w3.org/2012/Talks/0506-egp-EHRs/
16:04:13 <mscottm> http://www.smartplatforms.org/
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16:05:43 <Zakim> - +1.510.705.aaaa
16:05:47 <Zakim> - +1.720.708.aabb
16:05:57 <ericP> RRSAgent, please draft minutes
16:05:57 <RRSAgent> I have made the request to generate http://www.w3.org/2012/08/23-hcls-minutes.html ericP
16:06:05 <ericP> RRSAgent, please make log world-visible
16:06:06 <matthias_samwald> thanks, eric
16:06:42 <matthias_samwald> okay great
16:13:44 <ericP> matthias_samwald, just fixed a couple things on the minutes. leaving them alone now.
16:14:06 <matthias_samwald> okay thanks
16:19:27 <Zakim> - +1.410.550.aadd
16:19:33 <Zakim> -ericP
16:19:41 <Zakim> -Bob_Powers
16:23:25 <Zakim> -mscottm
16:23:26 <Zakim> SW_HCLS()11:00AM has ended
16:23:26 <Zakim> Attendees were +1.510.705.aaaa, +1.720.708.aabb, BobF, ericP, Bob_Powers, mscottm, +1.410.550.aadd
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