I'm interested. Phillip
Sent from my iPhone > On Mar 31, 2015, at 8:25 AM, Apathy,Nate <nate.apa...@cerner.com> wrote: > > Hi Jim, > > Yes, that's correct. We have a conversion table that holds the necessary > conversions from local units to the standard units as dictated by the > metadataxml and LOINC. Happy to discuss as well - I'll send another note off > this chain to organize that unless it would be valuable to discuss on the Dev > call. > > The March QA is next on our priority list, and after that we will be able to > work on the SNOMED test. I don't anticipate starting on that work until next > week at the earliest. > > Thanks, > > Nate Apathy > Solution Manager: i2b2 | nate.apa...@cerner.com | 816.201.2785 > > -----Original Message----- > From: Campbell, James R [mailto:campb...@unmc.edu] > Sent: Monday, March 30, 2015 11:09 PM > To: Apathy,Nate > Cc: <gpc-dev@listserv.kumc.edu>; Hickman, Hubert B; Campbell, Walter S; > Munns, Michael B > Subject: Re: [gpc-informatics] #158: usable view of LOINC lab terms > > Nate > Yes, I am referring to metadata agreed from H2. When we rolled out > metadataxml, we had to tweak some units but I matched those reported in our > i2b2 to UCUM reference and tailored to our lab reports. Are you saying that > you are comparing Regenstrief to local us=nits and compiling a lexicon of > conversions into the metadataxml? I would be interested to discuss by call > at your convenience > > ETA for SNOMED test load? > Jim > > James R. Campbell MD > campb...@unmc.edu > Office: 402-559-7505 > Secretary: 402-559-7299 > Pager: 402-888-1230 > >> On Mar 30, 2015, at 4:03 PM, "Apathy,Nate" <nate.apa...@cerner.com> wrote: >> >> Hi Jim, >> >> Can you clarify what you mean by the "GPC lab metadata"? Are you referring >> to the CMH: LOINC hierarchy on Babel that we decided upon during Hackathon >> II? We are working on a project now to normalize our units, as coded LOINC >> is a poor predictor of the actual units used in the lab setting for those >> tests. We haven't developed a script to build metadataxml; rather we have a >> reference table with 27,864 LOINC codes and their associated metadataxml per >> the LOINC standard units in the multiaxial hierarchy. We do a lookup on that >> table to pull the metadata in to our client lab ontologies, but as you can >> probably surmise by now we ran in to a lot of issues initially with >> mismatched units that made the metadataxml basically useless unless the >> units matched exactly. That is what precipitated the unit normalization >> project. There are several upstream data source issues that depend on other >> teams and need to take place before that project can be completed, so we are >> targeting the creation of t > hat curated LOINC ontology with standard units by the end of April. >> >> Thanks, >> >> Nate Apathy >> Solution Manager: i2b2 | nate.apa...@cerner.com | 816.201.2785 >> >> -----Original Message----- >> From: Campbell, James R [mailto:campb...@unmc.edu] >> Sent: Friday, March 27, 2015 11:54 PM >> To: <gpc-dev@listserv.kumc.edu>; Apathy,Nate >> Cc: Hickman, Hubert B; Campbell, Walter S; Munns, Michael B >> Subject: Re: [gpc-informatics] #158: usable view of LOINC lab terms >> >> Nate >> So, if I understand, you had calculated or developed metadataxml for all the >> entries in the GPC lab metadata? Wow, I did not understand that from >> Hackathon2 and we would love to get a copy of your java code to supplement >> our metadata browsing tools. Did you develop a java-based computation of >> metadataxml from the LOINC release record? We have considered that but have >> not had time. >> I thought we might be providing an enhancement to your metadata build but I >> agree entirely that it seems irrelevant. >> Jim >> >> James R. Campbell MD >> campb...@unmc.edu >> Office: 402-559-7505 >> Secretary: 402-559-7299 >> Pager: 402-888-1230 >> >>> On Mar 27, 2015, at 1:11 PM, "GPC Informatics" <d...@madmode.com> wrote: >>> >>> #158: usable view of LOINC lab terms >>> -------------------------+---------------------------- >>> Reporter: rwaitman | Owner: nateapathy >>> Type: enhancement | Status: assigned >>> Priority: major | Milestone: data-domains3 >>> Component: data-stds | Resolution: >>> Keywords: | Blocked By: >>> Blocking: | >>> -------------------------+---------------------------- >>> >>> Comment (by nateapathy): >>> >>> We reviewed the metadata included in the UNMC LOINC hierarchy and >>> found >>> 922 with metadata XML applied. We compared those leaf terms to our >>> current hierarchy and found 622 that overlapped with the 71,000+ >>> terms that are in our base hierarchy (the majority of which is hidden >>> on Babel). All of our metadata XML matched the data you had for >>> yours, only with a few semantic differences in naming conventions for tests >>> within the metadata panel. >>> >>> Since there is not a major material difference between these two sets >>> of metadata, I'm inclined to direct the group to the information I >>> shared in >>> [https://informatics.gpcnetwork.org/trac/Project/ticket/158#comment:2 >>> 0 comment20] on this thread. That comment includes a link to the base >>> multiaxial hierarchy from Regenstrief and the Java code we use to >>> transform that into our base LOINC hierarchy that was agreed upon as >>> the GPC hierarchy during Hackathon II. >>> >>> Let me know if there are any next steps or additional questions we >>> need to answer or clarify before we can close this ticket. >>> >>> -- >>> Ticket URL: >>> <http://informatics.gpcnetwork.org/trac/Project/ticket/158#comment:28 >>>> gpc-informatics <http://informatics.gpcnetwork.org/> >>> Greater Plains Network - Informatics >> >> The information in this e-mail may be privileged and confidential, intended >> only for the use of the addressee(s) above. Any unauthorized use or >> disclosure of this information is prohibited. 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