Just to share with the GPC-dev group notes from the PCORnet Data WG meeting on
July 17.
Discussion on data quality checks on labs
* Problem: lab completeness check requires >80% of labs reported with
normal ranges, which many sites feel uncomfortable in assigning one if it does
not come automatically from the EMR.
* Proposed easy solution: simplify the check by reporting whether a lab is
a clinical vs statistical outlier (defined based on PCORnet population).
* Long-term fix (CDM 6.0): introduce a new CDM table to be called
“reference range history” that would contain following elements for each lab:
* Lab (LOINC)
* Gender
* Age (go/from)
* Race
* Normal range
* Units
* Effective dates
When reporting normal ranges of labs, indicate whether it is derived from the
EMR or the reference range table.
Note that the long-term fix of adding a reference range history table will
require extra work from the sites. The timeline for the work is not confirmed
yet, but sites can start working on it.
Please let me know if you would like to discuss during the gpc-dev call.
Thanks,
Mei
From: Gpc-dev <[email protected]> On Behalf Of Dan Connolly
Sent: Monday, July 20, 2020 8:55 AM
To: [email protected]
Subject: gpc-dev 21 July agenda and meeting notes
What else for tomorrow?
UTHSCSA is scheduled to scribe
https://docs.google.com/document/d/18NSOQU1dKCc6Hzv_-TpJQnNQ_TBo-zs5Af1AfXH051Y/edit
1. Convene, take roll, review records and plan the next meeting(s).
* 11:00 a.m. Central Time.
Meeting ID and access code:
817-393-381<https://global.gotomeeting.com/meeting/join/817393381>; call +1
(571) 317-3131
* Roll; Reminder - put site after your name in
GoToMeeting<https://global.gotomeeting.com/meeting/join/817393381> preferences
GPC DevTeams<https://informatics.gpcnetwork.org/trac/Project/wiki/DevTeams>
represented? KUMC (chair), UIOWA, MCW, MCRI, UNMC, UTHSCSA (scribe), UTSW, MU,
IndianaU, Utah, Allina, Intermountain, UTH
* Comments on the agenda? (ref
SoftwareDev#tracking<https://informatics.gpcnetwork.org/trac/Project/wiki/SoftwareDev#tracking>)
On last week’s
notes?<https://docs.google.com/document/d/18NSOQU1dKCc6Hzv_-TpJQnNQ_TBo-zs5Af1AfXH051Y/edit#heading=h.9ioc8gnd1ijp>
(#12<https://informatics.gpcnetwork.org/trac/Project/ticket/12>)
Recent tickets
opened/closed<https://informatics.gpcnetwork.org/trac/Project/timeline> - FYI
(i.e. not intended for discussion)
* None this week
* Next meeting(s): Jul 28; scribe: UTSW?, IU?
* Note scribe
rotation<https://docs.google.com/document/d/1fPoDn0pdVvC-Mct58X7wkGD2rNiId8aNZ9JG_WCbcf4/edit#heading=h.zbjzupqx0rh7>
appendix
* #759<https://informatics.gpcnetwork.org/trac/Project/ticket/759>
covid19 PCORNet
datamarts<https://informatics.gpcnetwork.org/trac/Project/ticket/759> 28 May
“pause additional ETL development” until PCORI completes its review… Russ
standing by for more info
* Dan/KUMC to get more info about volume / quality issues where the
line was divided (not immediately)
* Marshfield will submit Bardet-Biedl Syndrome request through DROC
1. PCORnet CDM refresh with
PPRL<https://informatics.gpcnetwork.org/trac/Project/wiki/PPRL> - due July 27
* C4UI r024
Approved<http://listserv.kumc.edu/pipermail/gpc-dev/2020q3/011015.html> gold
star!
1.
Milestone:tumor-reg-18<https://informatics.gpcnetwork.org/trac/Project/milestone/tumor-reg-18>
aiming for Jul 10
* #749<https://informatics.gpcnetwork.org/trac/Project/ticket/749>
PCORNet style TUMOR
table<https://informatics.gpcnetwork.org/trac/Project/ticket/749>
* Brian to update gpc-dev w.r.t. DROC request
* #739<https://informatics.gpcnetwork.org/trac/Project/ticket/739> HERON
NAACCR ETL outdated by
v18<https://informatics.gpcnetwork.org/trac/Project/ticket/739>
kumc-bmi/naaccr-tumor-data<https://github.com/kumc-bmi/naaccr-tumor-data>
* DC to look into patient_mapping using item 2300 MRN
1. 1228 covid query due July 21
PR: what’s expected, given May 28 “pause additional ETL development”?
Steph to ask DRNOC to clarify.
DC to confirm Russ is attending today’s PCORnet steering committee meeting and
suggest that he seek clarification. Done: 1228 covid query due July 21?
<http://listserv.kumc.edu/pipermail/gpc-dev/2020q3/011014.html> Block, Jason
Perry,M.D.
wash your hands
...<https://www.cdc.gov/coronavirus/2019-ncov/prepare/prevention.html>
--
Dan
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