#583: SNOW SCILHS Lab Metadata Expansion
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Reporter: campbell | Owner: campbell
Type: enhancement | Status: assigned
Priority: major | Milestone: snow-
Component: data-stds | shrine-3
Keywords: LOINC Lab_PRO_CM SCILHS all-sites | Resolution:
Blocking: 411 | Blocked By:
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Comment (by campbell):
Yesh and I have checked the discrepancy and it arose from the frequent lab
list originating with GPC sites not including some of the less common labs
that Jeff Klann had included in his ARCH lab metadata. (SCILHS 3.1b was
the origin of the 'LAB NAMES' scheme which we will eventually remove as
ARCH accepts the larger SNOW SHRINE schema) Clearly we want these
Hemoglobin A1Cs even if they are infrequent. I am checking the 211 lab
test instances Phillip identified and we will be updating to include all
clinically relevant tests from that list for October 1 release of SNOW
SHRINE.
Jim
>>>
8/30/18 Phillip Reeder wrote:
I’m taking a look at the lab terminology and had a question, is the
lab_loinc part of the hierarchy supposed to be all inclusive? It seems to
be missing a bunch of loinc codes, including loinc codes that are in the
lab_name section of the hierarchy.
For example, these 3 a1c codes are in the lab_name section, but not the
lab_loinc section.
LOINC:17855-8 Hemoglobin A1c in Blood by calculation
LOINC:62388-4 Hemoglobin A1c in Blood by JDS/JSCC protocol
LOINC:59261-8 Hemoglobin A1c in Blood by IFCC protocol
You can run the following to get the list of the ones in the PCORI
lab_name section, but not in the lab_loinc section. I show 211 terms.
select distinct c_basecode from pcornet_labs where c_fullname like
'\PCORI\LAB_RESULT_CM\LAB_NAME%'
and c_basecode like 'LOINC:%' and
c_basecode not in (select distinct c_basecode from pcornet_labs where
c_basecode like 'LOINC:%'
and c_fullname like '\PCORI\LAB_RESULT_CM\LAB_LOINC%')
and c_basecode not like 'LOINC:LP%’;
--
Ticket URL:
<http://informatics.gpcnetwork.org/trac/Project/ticket/583#comment:15>
gpc-informatics <http://informatics.gpcnetwork.org/>
Greater Plains Network - Informatics
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