I have it on my schedule. Trial metadata changes to you in two weeks Jim James R. Campbell MD campb...@unmc.edu Office: 402-559-7505 Secretary: 402-559-7299 Pager: 402-888-1230
> On May 2, 2016, at 3:50 PM, Klann, Jeffrey G. <jeff.kl...@mgh.harvard.edu> > wrote: > > (Meeting details being handled separately.) > > I spoke with Shawn on this. We agree that getting some standard code > behind each item in the ontology seems important. And where that is not > possible we’ve probably modeled observations/value poorly and should > change the ontology. > > In the case of smoking status, we’ve discovered that the ontology tree is > based on a set of SNOMED codes, so each of these can be backed by a SNOMED > code. So I think the design is fine here, we should just add the SNOMED > codes. > > > Also I’d like to keep a reference to the (not-quite standard) i2b2-ized > PCORI codes in a separate column, for people implementing i2b2 on top of > the PCORI CDM (yes this does happen) - maybe in an i_pcori_basecode > column… or add a pcori_prefix column and realize this can be built from > that and pcori_code. > > Thanks, > Jeff > > Jeffrey Klann, PhD > Instructor of Medicine, Harvard Medical School > Instructor in Investigation, Massachusetts General Hospital > > > > > >> On 5/2/16, 2:06 PM, "Dan Connolly" <dconno...@kumc.edu> wrote: >> >> Jeff, in our gpc-dev call last Tuesday, you took the ball to make sure a >> meeting gets set up. What news? >> >> -- >> Dan >> >> ________________________________________ >> From: Klann, Jeffrey G. [jeff.kl...@mgh.harvard.edu] >> Sent: Monday, April 25, 2016 2:34 PM >> To: Dan Connolly; gpc-dev@listserv.kumc.edu; campb...@unmc.edu >> Cc: Murphy, Shawn N. >> Subject: Re: #455: SCILHS CDM compliant with ONC standard coding? >> >> Cool. Some initial reactions: >> >> This intuitively feels very useful, but what¹s the intended use case? In >> SCILHS, whatever c_basecodes we provide in the default ontology are mostly >> overwritten by local sites with their local terminologies, especially in >> demographics and vitals. I don¹t have a full set of the ontologies on >> hand, but I don¹t think they generally use LOINC internally. So is the >> goal: a) to encourage sites to transform to LOINC? B) to have a set of >> LOINCs for the (eventual) day that sites use these codes internally, to >> make mapping easier? Or C) to have a reference mapping to LOINC? Or >> something else? If c, I think the LOINC codes should go into a separate >> column. If B, I worry we need to make sure the list is exhaustive - we¹ve >> had a problem with labs where sites assume that since they use LOINC too >> they can just do a 1:1 mapping - but we don¹t provide all the possible >> LOINC codes, so this fails. >> >> Also there are some entries that have LOINCs but are not queryable. >> birth_date/birth_time are hidden in the SCILHS version because they are >> only accessible indirectly. There is a new ³age calculated² with a LOINC >> code but it¹s not useful for querying. Not sure what value the LOINCs have >> in this case. >> >> What time is the call tomorrow? We have SCILHS meetings all day but I >> might be able to cut out for 15 min depending on the time. >> >> Thanks for the work! >> Jeff >> >> Jeffrey Klann, PhD >> Instructor of Medicine, Harvard Medical School >> Instructor in Investigation, Massachusetts General Hospital >> >> >> >> >> >>> On 4/25/16, 11:58 AM, "Dan Connolly" <dconno...@kumc.edu> wrote: >>> >>> Everybody please take a look at this update; bonus points for reactions >>> in writing before our call tomorrow. >>> >>> Shawn, Jeff, you are of course welcome to join us (in writing and/or on >>> the call). Let me know if there's somebody else you'd like us to invite. >>> If we don't manage to sync with you SCHILS folks tomorrow, we'll look for >>> other opportunities. >>> >>> -- >>> Dan >>> >>> ________________________________________ >>> From: GPC Informatics [d...@madmode.com] >>> Sent: Sunday, April 24, 2016 9:33 AM >>> To: campb...@unmc.edu; Dan Connolly >>> Cc: Nathan Graham >>> Subject: Re: [gpc-informatics] #455: SCILHS CDM compliant with ONC >>> standard coding? >>> >>> #455: SCILHS CDM compliant with ONC standard coding? >>> --------------------------+---------------------------- >>> Reporter: campbell | Owner: campbell >>> Type: design-issue | Status: new >>> Priority: minor | Milestone: data-domains3 >>> Component: data-stds | Resolution: >>> Keywords: | Blocked By: >>> Blocking: | >>> --------------------------+---------------------------- >>> >>> Comment (by campbell): >>> >>> I have uploaded an initial revision of SCILHS.DEMOGRAPHIC metadata that >>> I >>> have started editing to include ONC standard coding. I would hope to >>> discuss this on our Tuesday call for UNMC compliance with GPC network >>> queries using i2b2 formalisms. >>> >>> This is in followup of discussion with Shawn Murphy at the Epic spring >>> meeting regarding publishing standards-based version of SCILHS that >>> would >>> allow sites employing national standards to use and avoid mapping >>> concept_cd to Harvard's local scheme. >>> Jim >>> >>> -- >>> Ticket URL: >>> <http://informatics.gpcnetwork.org/trac/Project/ticket/455#comment:4> >>> gpc-informatics <http://informatics.gpcnetwork.org/> >>> Greater Plains Network - Informatics >> >> >> >> The information in this e-mail is intended only for the person to whom it >> is >> addressed. If you believe this e-mail was sent to you in error and the >> e-mail >> contains patient information, please contact the Partners Compliance >> HelpLine at >> http://www.partners.org/complianceline . 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