RE: ACHILLES implementation

[McClay, James C]

Nebraska has not

_
James McClay, MD, MS, FACEP, FAMIA
Professor, Emergency Medicine
University of Nebraska Medical Center
jmcc...@unmc.edu

From: Gpc-dev  On Behalf Of Sravani Chandaka
Sent: Thursday, February 25, 2021 5:00 PM
To: gpc-dev@listserv.kumc.edu
Subject: ACHILLES implementation

Non-UNMC email
Hi All, Has any of the GPC sites implemented ACHILLES for OMOP data 
characterization? Thanks Sravani ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ 
‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ 
‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ 
‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ ‍ 

Hi All,
Has any of the GPC sites implemented ACHILLES for OMOP data characterization?

Thanks
Sravani

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RE: new COVID query still running

[McClay, James C]

Nebraska ran the query and submitted. We did not have any trouble and the run 
time was a few hours (3?).

_
James McClay, MD, MS, FACEP, FAMIA
Professor, Emergency Medicine
University of Nebraska Medical Center
jmcc...@unmc.edu

-Original Message-
From: Gpc-dev  On Behalf Of Reid Holbrook
Sent: Thursday, July 16, 2020 3:46 PM
To: gpc-dev@listserv.kumc.edu
Subject: new COVID query still running

 Non-UNMC email

Utah decided to run the new PCORNET COVID query (still deciding whether or not 
to submit it, decision is beyond my paygrade) Letting everybody know that is a 
very long running query.  Still not complete after running after 50 hours

Reid

-Original Message-
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gpc-dev-requ...@listserv.kumc.edu
Sent: Thursday, July 16, 2020 11:00 AM
To: gpc-dev@listserv.kumc.edu
Subject: Gpc-dev Digest, Vol 77, Issue 11

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Today's Topics:

   1. Re: C4UI r024 Approved (Russ Waitman)


--

Message: 1
Date: Thu, 16 Jul 2020 13:07:46 +
From: Russ Waitman 
To: PCORnet DRN OC , "Gryzlak, Brian M"
, "Wright, Michael J"
, "gi-yung-...@uiowa.edu"
, "mark-cro...@uiowa.edu"

Cc: Zachariah Cole , "Darcy Louzao, Ph.D."
, "GPC-DEV@LISTSERV.KUMC.EDU"
, Laura Qualls 
Subject: Re: C4UI r024 Approved
Message-ID: <73392b84-210f-45b1-88d4-8614baf98...@kumc.edu>
Content-Type: text/plain; charset="utf-8"

Congratulations Iowa!

Russ
From: PCORnet OC 
Date: Thursday, July 16, 2020 at 8:02 AM
To: Brian Gryzlak , "michael-wrigh...@uiowa.edu" 
, "gi-yung-...@uiowa.edu" , 
"mark-cro...@uiowa.edu" , Russ Waitman 

Cc: Darcy Louzao , Laura Qualls , 
Zachariah Cole 
Subject: C4UI r024 Approved

Good afternoon,

I?m happy to report that C4UI's data curation query response for refresh 24 was 
approved. Please retain a static, locked copy of the SAS version of the 
characterized tables and use these data when responding to SAS queries issued 
by the DRN OC or study teams, unless instructed otherwise.
You may update the SAS version of the HARVEST Table and the PCORNET_TRIAL 
Table, as well as your RDBMS DataMart as needed.
Thanks,
DRN OC Data Curation Team
-- next part --
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End of Gpc-dev Digest, Vol 77, Issue 11
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RE: gpc-dev Mar 31 agenda and meeting notes

[McClay, James C]

As discussed on the call

The CD2H COVID Web Site https://covid.cd2h.org/clinical_evidence

Organized under the NIH NCATS is attempting to harmonize all the various data 
sources.

_
James McClay, MD, MS, FACEP, FAMIA
Professor, Emergency Medicine
University of Nebraska Medical Center
jmcc...@unmc.edu

From: Gpc-dev  On Behalf Of Dan Connolly
Sent: Monday, March 30, 2020 9:48 AM
To: gpc-dev@listserv.kumc.edu
Subject: gpc-dev Mar 31 agenda and meeting notes

Non-UNMC email
What else for tomorrow?

MCW is scheduled to scribe.
https://docs.google.com/document/d/1YUBJFrGgxGSyea9_XUi3e9NIAUSdT4cjxDNQl4OdHJ0/edit#
 
[docs.google.com]

agenda snapshot:

  1.  Convene, take roll, review records and plan next meeting(s)

 *   11:00 a.m. Central Time.
​Meeting ID and access code: 817-393-381 
[global.gotomeeting.com];
 call +1 (571) 317-3131
 *   Roll; Reminder - put site after your name in GoToMeeting 
[global.gotomeeting.com]
 preferences
GPC DevTeams 
[informatics.gpcnetwork.org]
 represented? KUMC, UIOWA, MCW, MCRI,  UNMC, UTHSCSA, UTSW, MU, IndianaU, Utah, 
Allina, Intermountain

*   Today's scribe: MCW

 *   Comments on the agenda? (ref SoftwareDev#tracking 
[informatics.gpcnetwork.org])
 On last week’s notes? 
[docs.google.com]
 (#12 
[informatics.gpcnetwork.org])
Recent tickets opened/closed 
[informatics.gpcnetwork.org]
 - FYI (i.e. not intended for discussion)

*   None this week

 *   Next meeting(s): Apr 7; scribe: Allina? KUMC?

*   Note scribe rotation 
[docs.google.com]
 appendix

  1.  milestone:covid19wk 
[informatics.gpcnetwork.org]

 *   #759 
[informatics.gpcnetwork.org]
 covid19 PCORNet datamarts
[informatics.gpcnetwork.org]PCORnet
 Response to COVID-19 
[listserv.kumc.edu]
Russ will learn more in a meeting at noon March 24
 *   Maybe PCORNet would slip the deadline on the Apr refresh? Stephanie 
will inquire. Stand-by message 
[listserv.kumc.edu]
 Mar 25
 *   #758 
[informatics.gpcnetwork.org]
 covid19 ACT nodes refreshed 2x/week 
[informatics.gpcnetwork.org]
 *   JRC: in covid cohort identification - Should Scott and I share data 
standards relative to ICD, LOINC etc. to ensure 

RE: Question about CDM archiving

[McClay, James C]

Brian,
Nebraska keeps one previous live version and archives the prior one. (ie. The 
current CDM V51, the prior CDMV41 from July both live and queriable, then we 
archive the May version off the machine).



James McClay, MD, MS, FACEP, FAMIA
Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu
www.linkedin.com/in/infodoc
Twitter: @UNMCInformatics
402-559-3587

From: Gpc-dev  On Behalf Of Gryzlak, Brian M
Sent: Monday, October 28, 2019 10:29 AM
To: gpc-dev@listserv.kumc.edu
Subject: Question about CDM archiving

Non-UNMC email
Hi everyone,

Our BMI team is considering the extent to which sites need to be archiving cuts 
of their local CDMs to meet the requirements of PCORnet and/or the Sentinel 
initiative.

Does anyone (esp KUMC) have insight into the details of any such requirements?  
E.g., is this true, how far back are sites expected to retain copies of their 
CDMs, etc.?

Thanks,
Brian



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RE: DROC #53 (Brixner Lung Cancer) [was: gpc-dev 9 Jul ...]

[McClay, James C]

I’m just back from a trip. I suspect we won’t make the July 17 target.

James McClay, MD, MS, FACEP, FAMIA
Associate Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu
www.linkedin.com/in/infodoc
Twitter: @UNMCInformatics
402-559-3587

From: Gpc-dev  On Behalf Of Dan Connolly
Sent: Monday, July 15, 2019 9:04 AM
To: Maren Lowrance ; 'gpc-dev' 
Cc: AINSLEY ELIZABETH HUFFMAN ; 
'gpc-d...@listserv.kumc.edu' 
Subject: RE: DROC #53 (Brixner Lung Cancer) [was: gpc-dev 9 Jul ...]

Non-UNMC email
Maren,

Do you have what you expect / need on this? If managing the July 17 target 
merits discussion tomorrow, let us know one or two sites and what you're 
expecting from them.

--
Dan


From: Maren Lowrance
Sent: Monday, July 08, 2019 2:20 PM
To: Dan Connolly; 'gpc-dev'
Cc: 'gpc-d...@listserv.kumc.edu'
Subject: RE: gpc-dev 9 Jul agenda and meeting notes
Hi Dan,

Please add DROC request 
#53
 to the agenda.

Ainsley from Utah emailed the DROC with updated information:

  *   There is new SAS code which has been updated in the GPC DROC Oversight 
Supporting Materials

 *   Please note: In addition to the path at the top of the file, there is 
an output file path specified near the end of the SAS code. This will need to 
be changed at each site.

  *   Deadline pushed to next Wednesday, July 17th.
  *   Only sites who return patient counts of at least 30 patients should 
complete the full 
survey.

Thanks,

Maren Lowrance
Clinical Informatics Coordinator
Frontiers Informatics Navigator
913-588-7688


From: Gpc-dev 
mailto:gpc-dev-boun...@listserv.kumc.edu>> 
On Behalf Of Dan Connolly
Sent: Monday, July 08, 2019 12:19 PM
To: , mailto:gpc-dev@listserv.kumc.edu>>
Cc: Michael J Gurley 
mailto:m-gur...@northwestern.edu>>
Subject: gpc-dev 9 Jul agenda and meeting notes

What else for tomorrow?

IU is scheduled to scribe:
https://docs.google.com/document/d/1Tg4EPpaFhZZVsQvAJ77N0iZoMSgKko92smG-jHWOnvU/edit#

current snapshot:


  1.
  2.
  3.  Convene, take roll, review records
  4.  and plan next meeting(s)
  5.
6.

 *
 *
 *   11:00 a.m. Central Time.
 *   
​Meeting
 *   ID and access code: 
817-393-381;
 *   call +1 (571) 317-3131
 *
 *
 *
 *   Roll; comments on the agenda?
 *   (ref
 *   
SoftwareDev#tracking)
 *   Reminder - put site after
 *   your name in GoToMeeting preferences
 *
p.

*
*
*   GPC
*   
DevTeams
*   represented? KUMC, UIOWA, MCW, MCRI,  UNMC, UTHSCSA, UTSW, MU, 
IndianaU, Utah, Allina, Intermountain
*
*
*
*   Today's scribe:
*   IU - Jarrah
*

 *

 *
 *
 *   Comments on the agenda? On last
 *   week’s notes? 

RE: de-identified vs LDS

[McClay, James C]

The raw material is listed here
https://privacyruleandresearch.nih.gov/pr_08.asp

Hopkins IRB has a description
https://www.hopkinsmedicine.org/institutional_review_board/hipaa_research/limited_data_set.html

I'm sure there are better materials out there.
Jim

James McClay, MD, MS, FACEP, FAMIA
Associate Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu
www.linkedin.com/in/infodoc
Twitter: @UNMCInformatics
402-559-3587

From: Gpc-dev  On Behalf Of Wanta Keith M
Sent: Tuesday, June 25, 2019 11:08 AM
To: GPC-DEV@LISTSERV.KUMC.EDU
Subject: de-identified vs LDS

Non-UNMC email
Hi,

Does anyone in this group have documentation outlining the differences between 
a de-identified data set versus limited data set?  I used to have a PDF from 
years ago, but cannot find it.

Thank you.

---
Keith Wanta | Data Management Developer | UW Health - Enterprise Analytics | 
608-492-1099


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RE: PCORI_PMP_WP001 report for PCORI final report submission

[McClay, James C]

Hi Russ,
I was down a programmer this past month. The problem is a glitch in the DRN OC 
code to generate the pdf document. The DRN OC isn’t interested in fixing it. So 
we need to figure out how to process the raw SAS data into the format Hillary 
needs. Since we don’t have any SAS gurus, we’re trying to learn it as we go 
along.
I don’t know when the breakthrough will happen.
jm

James McClay, MD, MS, FACEP, FAMIA
Associate Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu<mailto:jmcc...@unmc.edu>
www.linkedin.com/in/infodoc<http://www.linkedin.com/in/infodoc>
Twitter: @UNMCInformatics
402-559-3587

From: Russ Waitman 
Sent: Monday, June 03, 2019 9:10 AM
To: McClay, James C ; Hillary Sandoval ; 
Mudgapalli, Ashok ; Dan Connolly 
; Sravani Chandaka ; 
GPC-DEV@LISTSERV.KUMC.EDU
Cc: Research Informatics Group, UNMC 
Subject: Re: PCORI_PMP_WP001 report for PCORI final report submission

Non-UNMC email
Hi Jim,
Any progress?  We need this for the phase 2 final report due this month.  
Another option might be to reach out to DRN OC.

Russ


From: Gpc-dev 
mailto:gpc-dev-boun...@listserv.kumc.edu>> 
on behalf of James McClay mailto:jmcc...@unmc.edu>>
Date: Tuesday, May 28, 2019 at 11:26 AM
To: Hillary Sandoval mailto:hsando...@kumc.edu>>, Ashok 
Mudgapalli mailto:ashok.mudgapa...@unmc.edu>>, Dan 
Connolly mailto:dconno...@kumc.edu>>, Sravani Chandaka 
mailto:schand...@kumc.edu>>, 
"GPC-DEV@LISTSERV.KUMC.EDU<mailto:GPC-DEV@LISTSERV.KUMC.EDU>" 
mailto:GPC-DEV@LISTSERV.KUMC.EDU>>
Cc: UNMC Research Informatics Group 
mailto:researchinformat...@unmc.edu>>
Subject: RE: PCORI_PMP_WP001 report for PCORI final report submission

Hilary,
We’re trying. The report you want does not generate in our system. DRN OC 
utilizes the raw SAS output. We’re trying to generate your report without 
manually parsing 4000 lines from the SAS output. Sorry.

James McClay, MD, MS
Associate Professor
Department of Emergency Medicine
University of Nebraska Medical Center
981150 Nebraska Medical Center
Omaha NE  68198-1150
402-559-3587 (office)

From: Gpc-dev 
mailto:gpc-dev-boun...@listserv.kumc.edu>> 
On Behalf Of Hillary Sandoval
Sent: Tuesday, May 28, 2019 10:44 AM
To: Mudgapalli, Ashok 
mailto:ashok.mudgapa...@unmc.edu>>; Dan Connolly 
mailto:dconno...@kumc.edu>>; Sravani Chandaka 
mailto:schand...@kumc.edu>>; 
GPC-DEV@LISTSERV.KUMC.EDU<mailto:GPC-DEV@LISTSERV.KUMC.EDU>
Cc: Research Informatics Group, UNMC 
mailto:researchinformat...@unmc.edu>>
Subject: RE: PCORI_PMP_WP001 report for PCORI final report submission

Non-UNMC email
Hi Ashok,

Nebraska did submit the query results when they were due, but now I need the 
numbers sent to me so that I can include them in the final report. Carol and 
Jim should have a template that I sent over to populate with the results and 
return to me, but if not let me know and I can send it to you as well.

Thanks,
Hillary

From: Mudgapalli, Ashok 
mailto:ashok.mudgapa...@unmc.edu>>
Sent: Tuesday, May 28, 2019 10:35 AM
To: Hillary Sandoval mailto:hsando...@kumc.edu>>; Dan 
Connolly mailto:dconno...@kumc.edu>>; Sravani Chandaka 
mailto:schand...@kumc.edu>>; 
GPC-DEV@LISTSERV.KUMC.EDU<mailto:GPC-DEV@LISTSERV.KUMC.EDU>
Cc: Research Informatics Group, UNMC 
mailto:researchinformat...@unmc.edu>>
Subject: RE: PCORI_PMP_WP001 report for PCORI final report submission

I have submitted for UNMC (while ago).
[cid:image001.png@01D51548.31FBECC0]
Are you looking for something else?
Thanks.

Ashok Mudgapalli
Research IT Office
(402-559-9072)

From: Gpc-dev 
mailto:gpc-dev-boun...@listserv.kumc.edu>> 
On Behalf Of Hillary Sandoval
Sent: Tuesday, May 28, 2019 10:31 AM
To: Dan Connolly mailto:dconno...@kumc.edu>>; Sravani 
Chandaka mailto:schand...@kumc.edu>>; 
GPC-DEV@LISTSERV.KUMC.EDU<mailto:GPC-DEV@LISTSERV.KUMC.EDU>
Subject: RE: PCORI_PMP_WP001 report for PCORI final report submission

Non-UNMC email
Hi Dan,

I think we are still missing Nebraska – they were going to have to do theirs a 
bit differently but I’d like to know the status of that as I was going to 
aggregate numbers for the report tomorrow.

I think we have everyone else we need. Since it is for the Phase II final 
report I am going to say we do not need responses from the three new sites. We 
will just use the 9 sites remaining from Phase II.

Thanks,
Hillary

From: Dan Connolly
Sent: Tuesday, May 28, 2019 10:29 AM
To: Sravani Chandaka mailto:schand...@kumc.edu>>; 
GPC-DEV@LISTSERV.KUMC.EDU<mailto:GPC-DEV@LISTSERV.KUMC.EDU>; Hillary Sandoval 
mailto:hsando...@kumc.edu>>
Subject: RE: PCORI_PMP_WP001 report for PCORI final report submission

Hillary, did you get everything you expected / needed?

In the redcap project (110), I see 8 received (MCW,
UIOWA, UTHSCSA, MU, Utah, UTSW,

RE: PCORI_PMP_WP001 report for PCORI final report submission

[McClay, James C]

Hilary,
We're trying. The report you want does not generate in our system. DRN OC 
utilizes the raw SAS output. We're trying to generate your report without 
manually parsing 4000 lines from the SAS output. Sorry.

James McClay, MD, MS
Associate Professor
Department of Emergency Medicine
University of Nebraska Medical Center
981150 Nebraska Medical Center
Omaha NE  68198-1150
402-559-3587 (office)

From: Gpc-dev  On Behalf Of Hillary Sandoval
Sent: Tuesday, May 28, 2019 10:44 AM
To: Mudgapalli, Ashok ; Dan Connolly 
; Sravani Chandaka ; 
GPC-DEV@LISTSERV.KUMC.EDU
Cc: Research Informatics Group, UNMC 
Subject: RE: PCORI_PMP_WP001 report for PCORI final report submission

Non-UNMC email
Hi Ashok,

Nebraska did submit the query results when they were due, but now I need the 
numbers sent to me so that I can include them in the final report. Carol and 
Jim should have a template that I sent over to populate with the results and 
return to me, but if not let me know and I can send it to you as well.

Thanks,
Hillary

From: Mudgapalli, Ashok 
mailto:ashok.mudgapa...@unmc.edu>>
Sent: Tuesday, May 28, 2019 10:35 AM
To: Hillary Sandoval mailto:hsando...@kumc.edu>>; Dan 
Connolly mailto:dconno...@kumc.edu>>; Sravani Chandaka 
mailto:schand...@kumc.edu>>; 
GPC-DEV@LISTSERV.KUMC.EDU
Cc: Research Informatics Group, UNMC 
mailto:researchinformat...@unmc.edu>>
Subject: RE: PCORI_PMP_WP001 report for PCORI final report submission

I have submitted for UNMC (while ago).
[cid:image001.png@01D51548.31FBECC0]
Are you looking for something else?
Thanks.

Ashok Mudgapalli
Research IT Office
(402-559-9072)

From: Gpc-dev 
mailto:gpc-dev-boun...@listserv.kumc.edu>> 
On Behalf Of Hillary Sandoval
Sent: Tuesday, May 28, 2019 10:31 AM
To: Dan Connolly mailto:dconno...@kumc.edu>>; Sravani 
Chandaka mailto:schand...@kumc.edu>>; 
GPC-DEV@LISTSERV.KUMC.EDU
Subject: RE: PCORI_PMP_WP001 report for PCORI final report submission

Non-UNMC email
Hi Dan,

I think we are still missing Nebraska - they were going to have to do theirs a 
bit differently but I'd like to know the status of that as I was going to 
aggregate numbers for the report tomorrow.

I think we have everyone else we need. Since it is for the Phase II final 
report I am going to say we do not need responses from the three new sites. We 
will just use the 9 sites remaining from Phase II.

Thanks,
Hillary

From: Dan Connolly
Sent: Tuesday, May 28, 2019 10:29 AM
To: Sravani Chandaka mailto:schand...@kumc.edu>>; 
GPC-DEV@LISTSERV.KUMC.EDU; Hillary Sandoval 
mailto:hsando...@kumc.edu>>
Subject: RE: PCORI_PMP_WP001 report for PCORI final report submission

Hillary, did you get everything you expected / needed?

In the redcap project (110), I see 8 received (MCW,
UIOWA, UTHSCSA, MU, Utah, UTSW, MCRF/MCRI, IU).


KUMC is presumably done.



UNMC

- Did you get help from Susan?



What news from Allina? Intermountain?


--
Dan


From: Gpc-dev [gpc-dev-boun...@listserv.kumc.edu] on behalf of Sravani Chandaka 
[schand...@kumc.edu]
Sent: Wednesday, May 01, 2019 10:40 AM
To: GPC-DEV@LISTSERV.KUMC.EDU
Subject: PCORI_PMP_WP001 report for PCORI final report submission
Hi gpc-dev,
You may have turned around the query results for the query pcori_pmp_wp001 
(pcori_pmp_wp001_nsd3_v01_2019) that the PCORnet DRN OC  sent on 03/21/2019. 
KUMC needs one of the pdf reports titled 'pcoriwp1r01_report' from the drnoc 
folder to consolidate the GPC site counts to submit the final report for PCORI. 
Please use the survey 
link
 to upload the report. Also, please note that Hillary Sandoval needs the 
reports from all the sites by 05/24/2019. Please let me know if you have any 
questions.

Thanks
Sravani Chandaka
Clinical Informatics Analyst
University of Kansas Medical Center


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http://listserv.kumc.edu/mailman/listinfo/gpc-dev

Re: Diabetes query run time

[McClay, James C]

I didn't check our run time but it was less than 5 hours. I launched it at 5 
and checked in at 10.

Sent from my phone. Please excuse typos.


From: Gpc-dev  on behalf of Verhagen, Laurel 
A 
Sent: Friday, January 11, 2019 10:50:52 AM
To: Russ Waitman; gpc-dev@listserv.kumc.edu
Subject: RE: Diabetes query run time

Non-UNMC email




Our runtime at Marshfield was under 13 hours. Have any other GPC sites tried 
this one yet? Do we have any updates to report?

Thanks,
Laurel

-Original Message-
From: Russ Waitman [mailto:rwait...@kumc.edu]
Sent: Friday, January 11, 2019 10:03 AM
To: Kho, Abel
Cc: tcar...@lphi.org; pu...@ochin.org; Maren Lowrance; Sravani Chandaka; 
Verhagen, Laurel A; Gpc-dev; PCORnet OC; Laura Qualls; Rothman, Russell 
(russell.roth...@vanderbilt.edu)
Subject: Re: Diabetes query run time

I'd feed that info back to duke and Vandy who were leading the Diabetes CRG  
that it may be a bridge too far

Russ


On 1/11/19, 10:00 AM, "Kho, Abel"  wrote:

Our run times are up to 80+ hours

Sent from my iPhone

> On Jan 11, 2019, at 9:47 AM, Russ Waitman  wrote:
>
> WARNING: External email, please be mindful before clicking or replying.
>
>
> They said it would take 19 hours
>
> Russ Waitman
>
>
>> On Jan 11, 2019, at 9:27 AM, Kho, Abel  wrote:
>>
>> Are any of your sites struggling with the diabetes rcr query with super 
long run times?  Most of our sites are not able to run it because of excessive 
run times
>>
>> Sent from my iPhone
>>
>>
>> This message and any included attachments are intended only for the 
addressee. The information contained in this message is confidential and may 
constitute proprietary or non-public information under international, federal, 
or state laws. Unauthorized forwarding, printing, copying, distribution, or use 
of such information is strictly prohibited and may be unlawful. If you are not 
the addressee, please promptly delete this message and notify the sender of the 
delivery error by e-mail.
>>


This message and any included attachments are intended only for the 
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FW: 2018 Learning Engagement Conference and HackathonSix

[McClay, James C]

Here are some information concerning the LEC in December

James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu
www.linkedin.com/in/infodoc
Twitter: @jmcclay
402-559-3587

From: Gpc-pi  On Behalf Of Hillary Sandoval
Sent: Thursday, September 20, 2018 3:50 PM
To: Meyer, Deborah K ; Kate Wilkinson 
; 'Hase, Judith L' 
; 'Dusha, Kathryn' 
; Paula Winkler ; 'Atkins, 
Andrea M.' ; Jane French ; 
'louisa.st...@utah.edu' ; 'heather.coul...@utah.edu' 
; 'kdedg...@gmail.com' 
Cc: 'lho...@charter.net' ; Bill Stephens 
; 'gpc...@listserv.kumc.edu' ; 
'Alice Basey' ; Geary, Carol R ; 
'Bobadilla, Raudel' ; Lucy Bailey ; 
'Jeff Ordway' ; Kim Kimminau ; Cheryl 
Jernigan ; Ludivina Hernandez 
Subject: [Gpc-pi] FW: 2018 Learning Engagement Conference and HackathonSix

Non-UNMC email



Hello everyone,

This email provides you with important information regarding this year's 
Greater Plains Collaborative Learning Engagement Conference (also called the 
"LEC") on December 10-11, 2018 in Kansas City. This is a great opportunity for 
us to all get together face-to-face to meet and learn from one another, and 
we're excited to host this important (and fun!) event. Information and notes on 
prior LECs can be found at the following links:


· 2017 Learning Engagement 
Conference

· 2016 Learning Engagement 
Conference

· 2015 Learning Engagement 
Conference

· 2014 Learning Engagement Kickoff

We need everyone to register (that includes both you as the PEO and your 
patient partner(s))


· Please register using our registration survey as soon as possible: 
https://redcap.kumc.edu/surveys/?s=FALMAN3AJH

Travel and lodging for the GPC Patient Advisory Council members


· To make travel as easy as possible for our patient partners, we would 
like each GPC Patient Engagement Officer to assist and coordinate to help 
arrange logistics. It would be ideal if you can travel together to the event.

· KUMC will be paying for patient partner travel, but due to payment 
restrictions we are unable to purchase their flights directly. Therefore, 
please use your respective institution's processes to purchase your patient 
partner's flight. Your site will then bill KUMC for a reimbursement. The bill 
along with the purchase receipt can be sent directly to me 
(hsando...@kumc.edu) and/or Brooklyn Winkel 
(bwink...@kumc.edu).

· In order to ensure that the chosen flights meet KUMC's travel 
guidelines, please email Brooklyn and I with your preferred flights for 
approval prior to purchasing. Flights generally need to be the cheapest 
available, with no upgrades or extras. We can reimburse for the cost of one 
checked bag per person. To ensure that prices do not increase when you go back 
to purchase, we recommend initially browsing flights using 
www.hipmunk.com, or using a private web browser window 
to search on an airline's website. Please let me know if you have questions on 
how to do this and I would be happy to help.

· We will reimburse patients directly for allowable costs incurred 
during their travel such as meals while traveling, parking at the airport, 
transportation to hotels, etc. Please work with them to ensure that expenses 
incurred follow the normal travel guidelines for reasonable expenses to ensure 
that the can be reimbursed in full. Here are some of the guidelines for 
reference:

o   Meals: We will reimburse any meals that are not provided as part of the 
event. We will reimburse actual amounts spent, but please try to stay under the 
Kansas City per diem amounts if possible. These are:

§  Breakfast: $11

§  Lunch: $12

§  Dinner: $23

o   Cabs: We can reimburse for rides to/from the airport and hotel. Please use 
a regular cab service or Uber as we must try to use the cheapest transportation 
methods available. If patients are able to travel with their PEOs, then then 
PEOs should cover this expense and be reimbursed by their institution.

o   Parking: If you choose to drive yourself to the airport, we can reimburse 
airport parking in the cheapest lot available at your airport.

o   Receipts: We will need actual receipts for every expense that we reimburse. 
We cannot accept screenshots of card charges, so please make sure to save all 
your receipts. These can be either scanned and emailed to us or placed in the 
physical mail after the event. Instructions will go out directly after the 
event for sending in your expenses and receiving reimbursement.

· We will pay for hotel rooms for patient partners, and those rooms 
will be 

RE: University of Kansas' r009 approved

[McClay, James C]

Yay!

James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu
www.linkedin.com/in/infodoc
Twitter: @jmcclay
402-559-3587

From: Gpc-dev  On Behalf Of Russ Waitman
Sent: Wednesday, August 15, 2018 8:37 AM
To: 'PCORnet DRN OC' ; Maren Wennberg ; 
Sravani Chandaka ; Laurel Verhagen 

Cc: GPC-DEV@LISTSERV.KUMC.EDU
Subject: RE: University of Kansas' r009 approved

Non-UNMC email



We cleared here in KC!

Russ


From: PCORnet DRN OC mailto:dr...@pcornet.org>>
Sent: Wednesday, August 15, 2018 8:02 AM
To: Maren Wennberg mailto:mwennb...@kumc.edu>>; Sravani 
Chandaka mailto:schand...@kumc.edu>>; Laurel Verhagen 
mailto:verhagen.lau...@mcrf.mfldclin.edu>>; 
Russ Waitman mailto:rwait...@kumc.edu>>
Cc: Allison Haufler 
mailto:allison.hauf...@duke.edu>>; Darcy Louzao, 
Ph.D. mailto:darcy.lou...@duke.edu>>; Laura Qualls 
mailto:laura.qua...@duke.edu>>
Subject: University of Kansas' r009 approved

Good morning.

I’m happy to report that C4UK's data curation query response for refresh 9 was 
approved.   Please retain a static, locked copy of the SAS version of the 
characterized tables and use these data when responding to SAS queries issued 
by the DRN OC or study teams, unless instructed otherwise.  You may update the 
SAS version of the HARVEST Table and the PCORNET_TRIAL Table, as well as your 
RDBMS DataMart as needed.  Please contact the DRN OC if an off-cycle refresh is 
required for any of the tables except for the HARVEST and PCORNET_TRIAL tables.

Thanks,
DRN OC Data Curation Team


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RE: U of Nebraska's r010 approved

[McClay, James C]

Thanks!

James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu
www.linkedin.com/in/infodoc
Twitter: @jmcclay
402-559-3587

From: Gpc-dev  On Behalf Of Russ Waitman
Sent: Thursday, August 02, 2018 12:55 PM
To: Mudgapalli, Ashok ; Campbell, James R 
; Laurel Verhagen 
Cc: GPC-DEV@LISTSERV.KUMC.EDU
Subject: RE: U of Nebraska's r010 approved

Non-UNMC email



Congrats to the Nebraska team!

Russ


From: PCORnet DRN OC mailto:dr...@pcornet.org>>
Sent: Thursday, August 02, 2018 12:50 PM
To: Mudgapalli, Ashok 
mailto:ashok.mudgapa...@unmc.edu>>; Campbell, James 
R mailto:campb...@unmc.edu>>; Laurel Verhagen 
mailto:verhagen.lau...@mcrf.mfldclin.edu>>; 
Russ Waitman mailto:rwait...@kumc.edu>>
Cc: Allison Haufler 
mailto:allison.hauf...@duke.edu>>; Laura Qualls 
mailto:laura.qua...@duke.edu>>; Darcy Louzao, Ph.D. 
mailto:darcy.lou...@duke.edu>>
Subject: U of Nebraska's r010 approved

Good afternoon.

I’m happy to report that C4UN's data curation query response for refresh 10 was 
approved.   Please retain a static, locked copy of the SAS version of the 
characterized tables and use these data when responding to SAS queries issued 
by the DRN OC or study teams, unless instructed otherwise.  You may update the 
SAS version of the HARVEST Table and the PCORNET_TRIAL Table, as well as your 
RDBMS DataMart as needed.  Please contact the DRN OC if an off-cycle refresh is 
required for any of the tables except for the HARVEST and PCORNET_TRIAL tables.

Thanks,
DRN OC Data Curation Team


The information in this e-mail may be privileged and confidential, intended 
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RE: Feasibility Query: Diabetic Kidney Disease Prediction and Risk Factor Identification with Machine Learning

[McClay, James C]

Mei Liu,
When I ran this query I had counts below threshold. Can you contact me to 
discuss?
jm

_
James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
University of Nebraska Medical Center
jmcc...@unmc.edu

From: Gpc-honest-brokers [mailto:gpc-honest-brokers-boun...@listserv.kumc.edu] 
On Behalf Of Tamara McMahon
Sent: Monday, May 21, 2018 4:13 PM
To: gpc-honest-brok...@listserv.kumc.edu;  

Cc: Mei Liu 
Subject: Feasibility Query: Diabetic Kidney Disease Prediction and Risk Factor 
Identification with Machine Learning

Non-UNMC email



All,

The GPC received a feasibility request from Dr. Mei Liu (DROC request #38).  
Attached is SQL code to run against CDM tables to provide counts.  The code 
will return a table.

Upload the table to this 
survey.  There is a short 
turnaround on this request (5/24 if possible).   Please direct questions to Mei 
Liu.

The following institutions have DROC approval and can submit their counts at 
any time.

Indiana
Iowa
MCW
Nebraska

The following sites do not have DROC approval yet.  Please contact your DROC 
representative with questions regarding the status.

Missouri
UTHSC-SA
UTSW

The following sites are not required to run the query.

CMH
KUMC
Marshfield
Minnesota
Wisconsin

Regards,
Tamara McMahon
Director, Engineering & Product Experience
Medical Informatics & Enterprise Analytics
University of Kansas Medical Center


The information in this e-mail may be privileged and confidential, intended 
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RE: [gpc-informatics] #676: SNOW SHRINE- UNMC production

[McClay, James C]

Jay, don't forget to login to the meeting now

James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu<mailto:jmcc...@unmc.edu>
www.linkedin.com/in/infodoc<http://www.linkedin.com/in/infodoc>
Twitter: @jmcclay
402-559-3587

From: Pedersen, Jay G
Sent: Monday, April 09, 2018 12:49 PM
To: Narayana, Yeshwanth R <yeshwanth.naray...@unmc.edu>; m...@wisc.edu; 
dconno...@kumc.edu; gpc-dev@listserv.kumc.edu
Cc: Campbell, James R <campb...@unmc.edu>; McClay, James C <jmcc...@unmc.edu>
Subject: Re: [gpc-informatics] #676: SNOW SHRINE- UNMC production


Hi,



regarding: <>>



SUMMARY



UNMC is able to process ICD9 queries on the SHRINE Spoke, but ...

currently has a performance issue that causes some queries to time out 
resulting in "unanticipated problem" report.



We are working in performance improvement.



Example -- I ran a age and ICD9 query twice -- failed first and succeeded on 
second try.



DETAILS



I just attempted a Age 45-54 query with ICD9 for Chronic Bronchitis



It failed with "unanticipated error" on the first execution.



A second execution of the query succeeded.



I believe the issue relates to the query execution time.

The first time it did not complete within the timeout period and the second 
time it did.



We are working on improving the performance of the query processing on our

SNOW SHRINE spoke, so that things like this stop happening.






Jay Pedersen, M.A.
Department of Pathology/Microbiology
University of Nebraska Medical Center
985900 Nebraska Medical Center
Omaha NE  68198-5900
402-559-9487 (office)
402-739-3496 (mobile)

From: GPC Informatics <d...@madmode.com<mailto:d...@madmode.com>>
Sent: Monday, April 9, 2018 11:30:33 AM
To: Narayana, Yeshwanth R; m...@wisc.edu<mailto:m...@wisc.edu>; 
dconno...@kumc.edu<mailto:dconno...@kumc.edu>
Cc: Campbell, James R; McClay, James C; Pedersen, Jay G
Subject: Re: [gpc-informatics] #676: SNOW SHRINE- UNMC production

Non-UNMC email




#676: SNOW SHRINE- UNMC production
--+
 Reporter:  ynarayana |   Owner:  mish
 Type:  problem   |  Status:  assigned
 Priority:  major |   Milestone:  snow-shrine-2
Component:  data-sharing  |  Resolution:
 Keywords:|  Blocked By:
 Blocking:|
--+
Changes (by dconnolly):

 * cc: campbell, jmcclay, jay.pedersen, mish, 
yeshwanth.narayana@...<mailto:yeshwanth.narayana@...> (added)


Comment:

 I just ran a query with age and an ICD9 code. I got:

 UNMC Prod Spoke "Dem, DX status by site@11:20:34"
  - An unanticipated problem encountered.

 Is there any news from UNMC on this?

--
Ticket URL: 
<http://informatics.gpcnetwork.org/trac/Project/ticket/676#comment:2>
gpc-informatics <http://informatics.gpcnetwork.org/>
Greater Plains Network - Informatics

The information in this e-mail may be privileged and confidential, intended 
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RE: UMN SNOW Shrine Maintenance

[McClay, James C]

Thanks! Merry Christmas

_
James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
University of Nebraska Medical Center
jmcc...@unmc.edu

From: Wanta Keith M [mailto:kwa...@uwhealth.org]
Sent: Tuesday, December 12, 2017 5:42 PM
To: McClay, James C <jmcc...@unmc.edu>; Andrew Hangsleben <hangs...@umn.edu>; 
GPC-DEV@LISTSERV.KUMC.EDU
Cc: Taylor Bill M <bill.tay...@wisc.edu>
Subject: RE: UMN SNOW Shrine Maintenance

Non-UNMC email



Hi Jim,

Bill and I will get in touch with Jay and Mike to make this happen.  Merry 
Christmas.

---
Keith M. Wanta
Data Management Developer
Enterprise Analytics
UW Health
608-492-1099

From: McClay, James C [mailto:jmcc...@unmc.edu]
Sent: Tuesday, December 12, 2017 3:50 PM
To: Wanta Keith M <kwa...@uwhealth.org<mailto:kwa...@uwhealth.org>>; Andrew 
Hangsleben <hangs...@umn.edu<mailto:hangs...@umn.edu>>; 
GPC-DEV@LISTSERV.KUMC.EDU<mailto:GPC-DEV@LISTSERV.KUMC.EDU>
Cc: Taylor Bill M <bill.tay...@wisc.edu<mailto:bill.tay...@wisc.edu>>
Subject: RE: UMN SNOW Shrine Maintenance

Hi,
Any chance you guys can switch Nebraska’s node to production? We’re ready to go 
(I think?).
jm

James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu<mailto:jmcc...@unmc.edu>
www.linkedin.com/in/infodoc<http://www.linkedin.com/in/infodoc>
Twitter: @jmcclay
402-559-3587

From: Gpc-dev [mailto:gpc-dev-boun...@listserv.kumc.edu] On Behalf Of Wanta 
Keith M
Sent: Tuesday, December 12, 2017 12:24 PM
To: Andrew Hangsleben <hangs...@umn.edu<mailto:hangs...@umn.edu>>; 
GPC-DEV@LISTSERV.KUMC.EDU<mailto:GPC-DEV@LISTSERV.KUMC.EDU>
Cc: Taylor Bill M <bill.tay...@wisc.edu<mailto:bill.tay...@wisc.edu>>
Subject: RE: UMN SNOW Shrine Maintenance

Non-UNMC email



Andrew,

Is it okay if I pull you off the downstream nodes list for now, so it doesn’t 
disrupt other sites?  I can add you back on tomorrow if you email or call.

---
Keith M. Wanta
Data Management Developer
Enterprise Analytics
UW Health
608-492-1099

From: Gpc-dev [mailto:gpc-dev-boun...@listserv.kumc.edu] On Behalf Of Andrew 
Hangsleben
Sent: Tuesday, December 12, 2017 12:12 PM
To: GPC-DEV@LISTSERV.KUMC.EDU<mailto:GPC-DEV@LISTSERV.KUMC.EDU>
Subject: UMN SNOW Shrine Maintenance

WARNING: This email appears to have originated outside of the UW Health email 
system.
DO NOT CLICK on links or attachments unless you recognize the sender and know 
the content is safe.
Hi Everyone,
The UMN node will be down for ~1 hour tomorrow morning at 6am central time for 
database maintenance. As a heads up, our ops team also has our server 
configured for automatic updates at 11pm central time on Tuesday nights 
(whenever there are updates).

Regards,
Andrew Hangsleben

--
Andrew Hangsleben
Developer/Analyst
Academic Health Center - Information 
Systems<http://hub.ahc.umn.edu/ahc-information-systems>
University of Minnesota
Phone: (612) 625-1285
Email: hangs...@umn.edu<mailto:hangs...@umn.edu>

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. If you have received this e-mail by mistake, 
please delete it and immediately contact the sender.

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. If you have received this e-mail by mistake, 
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RE: UMN SNOW Shrine Maintenance

[McClay, James C]

Hi,
Any chance you guys can switch Nebraska’s node to production? We’re ready to go 
(I think?).
jm

James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu
www.linkedin.com/in/infodoc
Twitter: @jmcclay
402-559-3587

From: Gpc-dev [mailto:gpc-dev-boun...@listserv.kumc.edu] On Behalf Of Wanta 
Keith M
Sent: Tuesday, December 12, 2017 12:24 PM
To: Andrew Hangsleben ; GPC-DEV@LISTSERV.KUMC.EDU
Cc: Taylor Bill M 
Subject: RE: UMN SNOW Shrine Maintenance

Non-UNMC email



Andrew,

Is it okay if I pull you off the downstream nodes list for now, so it doesn’t 
disrupt other sites?  I can add you back on tomorrow if you email or call.

---
Keith M. Wanta
Data Management Developer
Enterprise Analytics
UW Health
608-492-1099

From: Gpc-dev [mailto:gpc-dev-boun...@listserv.kumc.edu] On Behalf Of Andrew 
Hangsleben
Sent: Tuesday, December 12, 2017 12:12 PM
To: GPC-DEV@LISTSERV.KUMC.EDU
Subject: UMN SNOW Shrine Maintenance

WARNING: This email appears to have originated outside of the UW Health email 
system.
DO NOT CLICK on links or attachments unless you recognize the sender and know 
the content is safe.

Hi Everyone,
The UMN node will be down for ~1 hour tomorrow morning at 6am central time for 
database maintenance. As a heads up, our ops team also has our server 
configured for automatic updates at 11pm central time on Tuesday nights 
(whenever there are updates).

Regards,
Andrew Hangsleben

--
Andrew Hangsleben
Developer/Analyst
Academic Health Center - Information 
Systems
University of Minnesota
Phone: (612) 625-1285
Email: hangs...@umn.edu

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. If you have received this e-mail by mistake, 
please delete it and immediately contact the sender.
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RE: HackathonFive Registration

[McClay, James C]

Not sure why, but I didn't get the $115 rate online so I called the hotel.

James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu
www.linkedin.com/in/infodoc
Twitter: @jmcclay
402-559-3587

From: Gpc-dev [mailto:gpc-dev-boun...@listserv.kumc.edu] On Behalf Of Brooklyn 
Winkel
Sent: Monday, December 11, 2017 11:20 AM
To: 'gpc-dev@listserv.kumc.edu' 
Subject: RE: HackathonFive Registration
Importance: High

Non-UNMC email



Good morning,

We noticed this morning that there was a slight miscommunication for booking 
the hotel for HackathonFive.  I accidentally reserved a block at the wrong 
Holiday Inn.  If you have made your hotel reservations already, please call 
(816) 753-7400 and cancel them.  I'm sorry for the inconvenience, but I am 
unable to cancel them for you, and we aren't able to cancel the block until 
everyone has cancelled their reservations.

I've now reserved a block of rooms in the correct hotel (Holiday Inn Express & 
Suites, directly across from KUMC.)  Please use this link to make your 
reservations,
 and use the group code: HT5.  If you would prefer to call them to make your 
reservation, please call (913) 236-8700 and tell them you would like a room in 
the HackathonFive block.  (They were able to give us the same rate, $115/night.)

Although the original hotel is only two miles away from KUMC, the new hotel is 
right across the street so you wouldn't need to take cabs or shuttles to get to 
the Hackathon.

Please make your hotel reservations by January 20th, as that is the last day 
they can hold the rooms for us at that rate.  If you still haven't registered 
for HackathonFive and would like to do so, then please fill out the 
registration survey here.

I'm so sorry for the oversight, and if you have any problems cancelling your 
reservation or booking your new one please let me know.

Best regards,

Brooklyn Winkel
Administrative Assistant
Center for Medical Informatics and Enterprise Analytics
University of Kansas Medical Center
bwink...@kumc.edu
913-588-7251

Request Help Here
www.kumc.edu/ea-mi
www.gpcnetwork.org

From: Brooklyn Winkel
Sent: Friday, November 17, 2017 4:37 PM
To: 'gpc-dev@listserv.kumc.edu' 
>
Subject: HackathonFive Registration

Hello everyone,

HackathonFive
 has officially been scheduled to take place at KUMC on Monday, February 12th & 
Tuesday, February 13th.  We would like people to plan on arriving Sunday 
evening (we will likely host an informal dinner for those who are able to make 
it) so that they are ready to go at 8am on Monday morning.  The meeting will 
conclude around noon on Tuesday, so we would like to request that people plan 
their flights so that they won't need to leave until the meeting is over.

We are asking that all Site PIs attend this event, along with a member of their 
technical team.  For those who will be in attendance, please fill out our 
Registration Survey as soon as possible. 
 I understand that some of you 
may need an agenda before you are able to commit to going, and we are working 
on getting one together to send out soon.  The focus of the meeting will be 
similar to past Hackathons, so please feel free to check out the agenda from 
HackathonFour
 last year for an idea of what the meeting will be like.

I would like to ask that everyone please register by 1/12 at the latest as this 
is the cutoff date for reservations at our hotel block at the Holiday Inn 
Express & Suites across the street from the KUMC campus.  If you are attending 
and need a hotel, please book your room using this 
link,
 which will give you the discounted rate at the Holiday Inn Express & Suites.  
If you prefer to make your reservation over the phone, please call 
1-866-280-6326 and tell them it is for KU Med Center HackathonFive so you get 
the discounted rate.

Please let me know if you have any other questions at this time.  You may 
continue to check the 
HackathonFive
 page on our Informatics Wiki as it will be updated with the most recent 
logistical and 

RE: PCORnet Data Committee Monthly Meeting..Note social determinants survey

[McClay, James C]

I took a look at the survey.

I think it needs to be filled out by Mei Liu as she probably understands what 
they are asking for.

jm

James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu
www.linkedin.com/in/infodoc
Twitter: @jmcclay
402-559-3587

From: Gpc-dev [mailto:gpc-dev-boun...@listserv.kumc.edu] On Behalf Of Russ 
Waitman
Sent: Thursday, September 21, 2017 3:27 PM
To: GPC-DEV@LISTSERV.KUMC.EDU
Cc: pu...@ochin.org
Subject: RE: PCORnet Data Committee Monthly Meeting..Note social determinants 
survey

CAUTION: This email is not from a UNMC or Nebraska Medicine source. Only click 
links or open attachments you know are safe.

Hi GPC-DEV,
We've a survey released by the Social Determinants of Health Workgroup to 
understand how networks and sites are deploying social determinants of health 
information in their network like geocoding.

Dan: could we add who's filled this out as a brief agenda item for GPC-DEV call 
next week.  I don't think we need everyone but a good selection of site 
perspectives would be good.  Mei: you may also summarize a survey response from 
the perspective of how GPC is supporting Next-D in this space

Russ



-Original Appointment-
From: Ania Berchuck [mailto:ania.odd...@duke.edu]
Sent: Thursday, March 16, 2017 9:06 AM
To: Ania Berchuck; dmee...@usc.edu; Lesley Curtis; Russ 
Waitman; abel@nmff.org; 
bch...@mednet.ucla.edu; 
hsief...@aeras.org; 
keith.mars...@cchmc.org; 
michael.k...@ucdenver.edu; 
michael.math...@vanderbilt.edu; 
ra...@ufl.edu; 
rachel.h...@hsc.utah.edu; 
snmur...@partners.org; 
rr...@pcori.org; 
sbarb...@pcori.org; 
mzir...@pcori.org; 
jweindl...@pcori.org; 
kmarschhau...@pcori.org; 'Thomas Caruso'; 
cindy.gir...@cerobs.com; Haynes, Kevin; Vinit 
Nair; Jon Puro; Stephanie Poley; Sarah Palmer
Cc: Meg Welch; Lydia Mugo; Gretchen Sanders; Jennifer Paulakovich; Mina Baqai; 
Garofalo, Daniella; Lauren Cohen; Darcy Louzao, Ph.D.; Kirsty Fontaine; 
Ifeoluwa Olayemi; Perri Goldstein; Shirlane Chan
Subject: PCORnet Data Committee Monthly Meeting
When: Thursday, September 21, 2017 4:00 PM-5:00 PM (UTC-05:00) Eastern Time (US 
& Canada).
Where: WebEx (please see notes)


Monthly Meeting Agenda:

* SDOH - Bowen and Jon (5 min)
* Survey open 
until Friday, September 29.
* Data Committee Transitions - Russ (15 min)
* Committee Chair Elections will start in October (call for 
nominations: 10/9) with new terms beginning in November
* The new committee chairs will begin their roles on the EC after 
11/16/17
* Committee Members
* 3-3-4 year rotation model
* Obfuscation of the numbers/counts in query results - Shawn (10 min)
* October 6 F2F - Russ (25 min)
* Complete this 
registration
 by Friday, September 22
* Agenda- see attached (from 8/17 monthly meeting suggestions):
* New Business - All (5 min)



WebEx: 
https://dukemed.webex.com/dukemed/j.php?MTID=mc30a88470fec7febd1fff2075816d952
Phone: 1-650-479-3207 / Access code: 732 821 876 / Password (if needed): 1234



Monthly Recurring Data Committee Meeting: Every third Thursday of the month 
from 3-4 PM Central (4-5 PM Eastern)
(This meeting invite is scheduled through September 2017)

  << File: 2017-09-21 Data Comittee Monthly Meeting_Slides.pptx >>  << File: 
Gaussian Fuzzing Proposal for PCORnet Queries - sent out by snm 9-20-2017.docx 
>>  << File: 2017-10-06 Data Committee F2F Agenda.docx >>


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RE: Running CDM queries for CTSA program to calculate Common Metrics.

[McClay, James C]

Hi Russ, Erica,
We're not a CTSA site but I ran the query without trouble (3m 51s)



James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu
www.linkedin.com/in/infodoc
Twitter: @jmcclay
402-559-3587

From: Gpc-dev [mailto:gpc-dev-boun...@listserv.kumc.edu] On Behalf Of Russ 
Waitman
Sent: Friday, September 01, 2017 12:37 PM
To: GPC-DEV@LISTSERV.KUMC.EDU
Cc: 'rosemo...@mail.nih.gov' ; 'clar...@uthscsa.edu' 
(clar...@uthscsa.edu) 
Subject: Running CDM queries for CTSA program to calculate Common Metrics.

CAUTION: This email is not from a UNMC or Nebraska Medicine source. Only click 
links or open attachments you know are safe.

Hi Everyone,

You may already know this but I am on the CTSA call with the other sites and 
Erica Rosemond at NIH has worked with the San Antonio team to develop CTSA 
Informatics Common Metrics against the PCORnet CDM (kudos UTHSC-SA!) and also 
OMOP.

They are looking for people to pilot the scripts
https://github.com/ncats/CTSA-Metrics

Let Dr. Rosemond (cced) know if you want to pilot.

Erica: Maren Wennberg on our team at KUMC can run those for you.  Maren: can 
you check the scripts wrt if I should log it with the DROC as a feasibility or 
a DUA.  I think it's just Counts and I don't need to do a DUA.

Russ Waitman, PhD
Director of Medical Informatics
Associate Vice Chancellor for Enterprise Analytics
Professor, Department of Internal Medicine
University of Kansas Medical Center, Kansas City, Kansas
913-945-7087 (office)
rwait...@kumc.edu
http://www.kumc.edu/ea-mi/
http://informatics.kumc.edu
http://www.gpcnetwork.org - a PCORnet collaborative 
www.pcornet.org


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RE: [gpc-informatics] #579: Data Characterization - Cycle 3 Tracking

[McClay, James C]

Not that it’s a race  but, WE WIN!

_
James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
University of Nebraska Medical Center
jmcc...@unmc.edu

-Original Message-
From: GPC Informatics [mailto:d...@madmode.com]
Sent: Monday, July 24, 2017 9:19 AM
To: verhagen.lau...@mcrf.mfldclin.edu; mprit...@kumc.edu; dconno...@kumc.edu; 
Campbell, James R <campb...@unmc.edu>; kosin...@mcw.edu; McClay, James C 
<jmcc...@unmc.edu>; hangs...@umn.edu
Cc: gpc-dev@listserv.kumc.edu
Subject: Re: [gpc-informatics] #579: Data Characterization - Cycle 3 Tracking

#579: Data Characterization - Cycle 3 Tracking
--+-
 Reporter:  lv|   Owner:  mprittie
 Type:  task  |  Status:  assigned
 Priority:  major |   Milestone:  cdm-cycle3
Component:  data-stds |  Resolution:
 Keywords:  CDM v3, DCQ, EDC  |  Blocked By:
 Blocking:|
--+-
Changes (by dconnolly):

 * type:  problem => task


Comment:

 UNMC, MCW, WISC, KUMC are approved.

  - Date: Monday, July 17, 2017 at 9:27 AM
\\Subject: C4UN's r005 approved
  - Date: Tuesday, July 18, 2017 at 1:28 PM
\\Subject: Med Coll Wisconsin's r004 approved
  - Sent: Wednesday, July 19, 2017 9:55 AM
\\Subject: UW Madison's r005 approved
  - Sent: Thursday, July 20, 2017 8:01 AM
\\Subject: FW: University of Kansas' r004 approved

--
Ticket URL: 
<http://informatics.gpcnetwork.org/trac/Project/ticket/579#comment:12>
gpc-informatics <http://informatics.gpcnetwork.org/>
Greater Plains Network - Informatics

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RE: GPC Dev Agenda Item 7/11: patient registries

[McClay, James C]

Hi Tamara
Just over a year ago Nebraska Medicine changed the Conditions of Treatment form 
to include consent to be contacted for research. About 2/3 of our patients are 
opting in. We just finished the policy allowing direct patient contact in that 
case. The Vice Chancellor of Research Office has centralized the process so 
there is only one channel to contacting patients-this allows us to standardize 
the message appearance, content and point of contact.
jm

James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu
www.linkedin.com/in/infodoc
Twitter: @jmcclay
402-559-3587

From: Gpc-dev [mailto:gpc-dev-boun...@listserv.kumc.edu] On Behalf Of Tamara 
McMahon
Sent: Monday, July 10, 2017 11:27 AM
To:  
Subject: GPC Dev Agenda Item 7/11: patient registries

At KUMC we have Frontiers, a registry of patients who agree to be contacted in 
the event that they meet study criteria.  Consenting to be in this registry 
allows for researchers to contact patients directly without going through the 
treating physician.  What is the situation at each site?


1.   Do any other sites have this type of registry?

2.   Are researchers allowed to contact patients directly without involving 
the treating physician?

Thank you,
Tamara McMahon
Director, Engineering & Product Experience
Medical Informatics & Enterprise Analytics
University of Kansas Medical Center


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RE: SNOW SHRINE due date?

[McClay, James C]

Is it just Nebraska or is the setup and configuration of the SHRINE node really 
onerous? Our sysadmin has put in HOURS and isn't finished yet. We didn't budget 
for all this trouble.

Anyone found an easy configuration process?
jm

From: Gpc-dev [mailto:gpc-dev-boun...@listserv.kumc.edu] On Behalf Of Dan 
Connolly
Sent: Thursday, June 1, 2017 4:17 PM
To: Gryzlak, Brian M ; gpc-dev@listserv.kumc.edu
Subject: RE: SNOW SHRINE due date?

The due date for 
milestone:snow-shrine-2
 was April... it's now... um... May 29. You got your time machine installed and 
running, right?

I suppose June 30 should work. I tend to keep due dates on Mondays, in time for 
agenda prep for Tuesday calls, so I put June 26 in trac. That is: if you don't 
expect to make it by June 30, please let us know by June 26.

Juggling due dates SHRINE, CDM 3.1, and free text notes de-identification is 
tricky, so I expect to talk with Russ about the 
roadmap of milestones 
soon.

--
Dan

From: Gpc-dev [gpc-dev-boun...@listserv.kumc.edu] on behalf of Gryzlak, Brian M 
[brian-gryz...@uiowa.edu]
Sent: Thursday, June 01, 2017 4:01 PM
To: gpc-dev@listserv.kumc.edu
Subject: SNOW SHRINE due date?
Can someone (Dan, Russ?) please weigh in on when it is expected that individual 
GPC sites should have their SNOW SHRINE nodes up?  Is June 30 a realistic and 
acceptable due date?

Thanks,
Brian

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RE: PopMedNet MDQ with Oracle SID

[McClay, James C]

Thanks Laurel,
If everyone else already completed the MDQ. What is the special sauce to make 
it work? Did everyone else have any concerns about linking to their database 
server?

Jim

James McClay, MD
jmcc...@unmc.edu<mailto:jmcc...@unmc.edu>
402-559-3587

From: Verhagen, Laurel A [mailto:verhagen.lau...@mcrf.mfldclin.edu]
Sent: Wednesday, December 21, 2016 10:26 AM
To: Dan Connolly <dconno...@kumc.edu>; Tim Meyer <meye0...@umn.edu>; McClay, 
James C <jmcc...@unmc.edu>
Cc: GPC-DEV@LISTSERV.KUMC.EDU
Subject: RE: PopMedNet MDQ with Oracle SID

Hi Dan,

The Menu-Drive Query that is due today (12/21) was only distributed to Group 2 
sites that did not complete the MDQ during cycle 1. KUMC does not need to take 
any action.

Thanks,
Laurel

From: Gpc-dev [mailto:gpc-dev-boun...@listserv.kumc.edu] On Behalf Of Dan 
Connolly
Sent: Wednesday, December 21, 2016 10:13 AM
To: Tim Meyer; McClay, James C
Cc: GPC-DEV@LISTSERV.KUMC.EDU<mailto:GPC-DEV@LISTSERV.KUMC.EDU>
Subject: RE: PopMedNet MDQ with Oracle SID

As far as I know, KUMC hasn't started on this menu-driven-query stuff. Were we 
supposed to? Did I miss a clue?

--
Dan

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Please contact the sender and advise of the erroneous delivery by return e-mail 
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RE: PopMedNet MDQ with Oracle SID

[McClay, James C]

Nebraska was getting the same error yesterday. No resolution yet.

James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu
www.linkedin.com/in/infodoc
Twitter: @jmcclay
402-559-3587

From: Gpc-dev [mailto:gpc-dev-boun...@listserv.kumc.edu] On Behalf Of French, 
Tony
Sent: Wednesday, December 21, 2016 7:16 AM
To: GPC-DEV@LISTSERV.KUMC.EDU
Subject: PopMedNet MDQ with Oracle SID

Has anyone been successful at configuring the PopMedNet client to  connect to 
Oracle using a SID, instead of a service name?  I'm getting an "ORA-12514, 
TNS:listener does not currently know of service requested in connect 
descriptor" error when I attempt to use our SID for the Database value.  (Our 
DBA's have chosen to continue supporting Oracle SIDs instead of service names.)



Thanks,
Tony


Tony French  |  Software Development Manager, Research
Center for Biomedical Informatics
[cid:image001.png@01D25B60.730633A0]
1101 West Tenth Street
Indianapolis, IN, 46202
Tel 317-274-9087 | Fax: 317-274-9305
Twitter: @Regenstrief  |  
Facebook.com/regenstriefinstitute
www.regenstrief.org

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RE: [gpc-informatics] #543: UW Madison Bariatric query age calculation problem.

[McClay, James C]

Congratulations to UWM!

James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu
www.linkedin.com/in/infodoc
Twitter: @jmcclay
402-559-3587

-Original Message-
From: GPC Informatics [mailto:d...@madmode.com]
Sent: Friday, December 16, 2016 3:39 PM
To: McClay, James C <jmcc...@unmc.edu>; m...@wisc.edu; dconno...@kumc.edu
Cc: tachina...@wisc.edu
Subject: Re: [gpc-informatics] #543: UW Madison Bariatric query age calculation 
problem.

#543: UW Madison Bariatric query age calculation problem.
---+---
 Reporter:  jmcclay|   Owner:  mish
 Type:  problem|  Status:  assigned
 Priority:  critical   |   Milestone:  bariatric-study-data
Component:  wisc-site  |  Resolution:
 Keywords: |  Blocked By:
 Blocking: |
---+---

Comment (by mish):

 Debbie has returned the results for a refreshed PopMedNet query for Aim 1.

--
Ticket URL: 
<https://urldefense.proofpoint.com/v2/url?u=http-3A__informatics.gpcnetwork.org_trac_Project_ticket_543-23comment-3A3=DwICaQ=ZukO2fIan9e5E9v43wuy1w=2VCh0Oru51DJNpJ2_4EbvA=SHIHzD150_wQGdenwbobXcPt4JEZ2tck0AE8GnbzzCg=Ym7Tg0QiRMYWxXbW6mNQdB5MrdD59WdEWuyx6AGxXAQ=
 > gpc-informatics 
<https://urldefense.proofpoint.com/v2/url?u=http-3A__informatics.gpcnetwork.org_=DwICaQ=ZukO2fIan9e5E9v43wuy1w=2VCh0Oru51DJNpJ2_4EbvA=SHIHzD150_wQGdenwbobXcPt4JEZ2tck0AE8GnbzzCg=sGb-IW2OPGJyRCEEOWASH6YUr9kT4Zw24DvV78dFFr0=
 > Greater Plains Network - Informatics

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RE: Reminder: PCORnet Data Characterization for your campus is due TOMORROW

[McClay, James C]

Nick,
If you are concerned, contact the PCORnet DRN Team 
pcornet...@popmednet.org.
Supposedly, if the PMN request goes away without an error then you've submitted 
correctly.
jm

_
James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
University of Nebraska Medical Center
jmcc...@unmc.edu

From: Gpc-dev [mailto:gpc-dev-boun...@listserv.kumc.edu] On Behalf Of Russ 
Waitman
Sent: Friday, December 16, 2016 4:43 PM
To: 'Smith, Nicholas C' ; Gryzlak, Brian M 
; GPC-DEV@LISTSERV.KUMC.EDU; gpc...@listserv.kumc.edu
Cc: Chrischilles, Elizabeth A ; PCORnet DRN OC 
(dr...@pcornet.org) 
Subject: RE: Reminder: PCORnet Data Characterization for your campus is due 
TOMORROW

Hi Nick,
I'd defer to others on our and other GPC teams who did the uploading.  I can't 
remember what they hear back,

Russ


From: Smith, Nicholas C [mailto:nicholas-c-sm...@uiowa.edu]
Sent: Friday, December 16, 2016 4:42 PM
To: Gryzlak, Brian M; Russ Waitman; 
GPC-DEV@LISTSERV.KUMC.EDU; 
gpc...@listserv.kumc.edu
Cc: Chrischilles, Elizabeth A
Subject: RE: Reminder: PCORnet Data Characterization for your campus is due 
TOMORROW

Hi, Russ:

I zipped the results and uploaded them via the DataMart Client.  How can I 
verify that I have done this correctly?


[cid:image001.jpg@01D25888.8F7E95C0]

Nicholas C. Smith, MS
Senior Database Architect
Institute for Clinical & Translational Science 
(http://www.icts.uiowa.edu)
Email:  nicholas-c-sm...@uiowa.edu
Phone:  319-467-8173



From: Gpc-dev [mailto:gpc-dev-boun...@listserv.kumc.edu] On Behalf Of Gryzlak, 
Brian M
Sent: Friday, December 16, 2016 2:52 PM
To: Russ Waitman; GPC-DEV@LISTSERV.KUMC.EDU; 
gpc...@listserv.kumc.edu
Subject: RE: Reminder: PCORnet Data Characterization for your campus is due 
TOMORROW

This is IOWA weighing in - we are on top of this and we expect that we will 
submit the data characterization query soon - targeting within in the next hour 
or so.  We inadvertently thought this was completed.  Nick Smith is leading 
this effort.

Brian

From: Gpc-dev [mailto:gpc-dev-boun...@listserv.kumc.edu] On Behalf Of Russ 
Waitman
Sent: Thursday, December 15, 2016 4:35 PM
To: GPC-DEV@LISTSERV.KUMC.EDU; 
gpc...@listserv.kumc.edu
Subject: Reminder: PCORnet Data Characterization for your campus is due TOMORROW

Hi Everybody,
I imagine many of you are trying to not only pass the basic CDM checks but also 
put in extra diligence on your CDM refresh to DRONC.

The good news is DRNOC will let you know almost immediately if you pass and 
your report will make it very clear if all is good.

I just wanted to check though to see if everyone is on target and I may have 
missed word from Duke on who passed muster.

So far, I think I have record that the following places are good to go with 
this second wave:

-  Nebraska

-  Mizzou

-  MCW - Milwaukee

-  UM - Madison

-  KUMC

Is everyone else on track?

-  If not, anything we can give as tips to help out?

-  I think Michael, Maren, Dan, and Nathan here have been updating 
github and trac with any things we've run across with the i2p-transform code.

Russ Waitman, PhD
Director of Medical Informatics
Associate Vice Chancellor for Enterprise Analytics
Professor, Department of Internal Medicine
University of Kansas Medical Center, Kansas City, Kansas
913-945-7087 (office)
rwait...@kumc.edu
http://www.kumc.edu/ea-mi/
http://informatics.kumc.edu
http://informatics.gpcnetwork.org
 - a PCORnet collaborative



Notice: This UI Health Care e-mail (including attachments) is covered by the 
Electronic Communications Privacy Act, 18 U.S.C. 2510-2521 and is intended only 
for the use of the 

FW: Wave 1 individual level query timeline

[McClay, James C]

James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu<mailto:jmcc...@unmc.edu>
www.linkedin.com/in/infodoc<http://www.linkedin.com/in/infodoc>
Twitter: @jmcclay
402-559-3587

From: Arterburn, David [mailto:arterbur...@ghc.org]
Sent: Tuesday, September 27, 2016 10:34 AM
To: McClay, James C <jmcc...@unmc.edu>
Cc: Anau, Jane <ana...@ghc.org>; Buzalko, Russell J <russell.buza...@unmc.edu>
Subject: RE: Wave 1 individual level query timeline

BTW - Jim,
Here is my current list of GPC sites and where they stand... please review and 
confirm.

Here's my current list of Aim 1 query eligible DMs:
GPC (University of Kansas)
GPC (Marshfield Clinic)
GPC (U Iowa)
GPC (UW Madison)

This is my current list of Research Ready DMs that we still need to receive a 
SSDC query on before we send them an Aim 1 query:
GPC (Med Coll Wisconsin) - not likely to be able to respond
GPC (UT San Antonio) - not likely to be able to respond
GPC (UT SW Med Ctr) - data problems fixed, refreshed, awaiting SSDC response

Not eligible for queries:
GPC (U of Nebraska) GROUP 2 (no access to DRN OC resources at this time)

--David

From: McClay, James C [mailto:jmcc...@unmc.edu]
Sent: Tuesday, September 27, 2016 8:08 AM
To: Anau, Jane; Arterburn, David
Subject: Wave 1 individual level query timeline

Jane,
I can't find details on the wave 1 individual level query timeline. My Project 
managers are hovering around my door. They want to make plans. Can I tell them 
dates?
jm

James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu<mailto:jmcc...@unmc.edu>
www.linkedin.com/in/infodoc<http://www.linkedin.com/in/infodoc>
Twitter: @jmcclay
402-559-3587


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RE: ALS FRS available at your site?

[McClay, James C]

Tamara,
I just confirmed the Nebraska ALS clinic captures the FRS in Epic and updated 
ticket 380
jm

_
James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
University of Nebraska Medical Center
jmcc...@unmc.edu

From: gpc-honest-brokers-boun...@listserv.kumc.edu 
[mailto:gpc-honest-brokers-boun...@listserv.kumc.edu] On Behalf Of Tamara 
McMahon
Sent: Friday, August 19, 2016 3:13 PM
To: gpc-dev@listserv.kumc.edu; gpc-honest-brok...@listserv.kumc.edu
Subject: ALS FRS available at your site?

The GPC ALS Group is interested in obtaining data on the ALS FRS (Functional 
Rating Scale).  Can each institution indicate if this data are available at 
each site in ticket 
380?

Thank you,
Tamara McMahon
Director of Engineering and Product Experience
Division of Medical Informatics
University of Kansas Medical Center


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Queries coming across PopMedNet

[McClay, James C]

Greetings,
This is a screen shot of a table in the weekly PCORnet announcements 
https://pcornet.imeetcentral.com/pcornetmain/blogentry/46968268/#crg.
The fifth one down is the Bariatric study query.

The weight cohort in this table is a PCORnet project, not the GPC weight/height 
cohort.

If you pull up the news letter the hyperlinks takes you to the central desktop 
location of the query.

[cid:image001.png@01D1F247.E57624E0]

James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu
www.linkedin.com/in/infodoc
Twitter: @jmcclay
402-559-3587


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RE: GPC DEID Data Request: Immunoglobulin G Levels and the pattern of infection

[McClay, James C]

We used LOINC 2465-3 IgG [Mass/volume] in Serum or Plasma. It’s listed as mg/dL.


James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu
www.linkedin.com/in/infodoc
Twitter: @jmcclay
402-559-3587

From: gpc-dev-boun...@listserv.kumc.edu 
[mailto:gpc-dev-boun...@listserv.kumc.edu] On Behalf Of Campbell, James R
Sent: Wednesday, July 06, 2016 12:01 PM
To: Verhagen, Laurel A 
Cc: gpc-dev@listserv.kumc.edu
Subject: Re: GPC DEID Data Request: Immunoglobulin G Levels and the pattern of 
infection

Laurel
The LOINC parts code (LP14672-2) is only valid as a defining 'atom' in LOINC 
and should be ignored for retrieving valid IgG levels from your lab data.  I 
assume this was a simple misinterpretation of the meaning of the LOINC part.
Jim

James R. Campbell MD
campb...@unmc.edu
Office: 402-559-7505
Secretary: 402-559-7299
Pager: 402-888-1230

On Jul 5, 2016, at 4:24 PM, Verhagen, Laurel A 
> 
wrote:
Hi Sravani and Tamara,

I’m wondering if one of you can help answer a question related to the PI 
CONNECT query.

The Cohort definition doesn’t specify coding for the IgG levels. Marshfield 
doesn’t populate LP14672-7, which is used in the sample query on babel.

Is it appropriate to substitute another test? If so, does the PI want to 
provide a list of approved codes or can this be localized without PI 
involvement?

I do have data for LOINC 
2465-3  
IgG [Mass/​volume] in Serum or Plasma, as well as several panels that contain 
the component:

MEMBER OF THESE PANELS
   34550-4Immunoglobulin panel [Mass/​volume] - 
Serum
   47289-4IgG and IgG subclass panel [Mass/​volume] 
- Serum
   55121-8Multiple sclerosis panel - Serum and CSF
   55295-0Protein electrophoresis and 
Immunoglobulins panel - Serum

We also have a couple of CPT codes that might be relevant – 82784, 82787.

Looking for guidance on how to proceed—or whether Marshfield would be out, 
because we’re missing LP14672-7.

Thanks,
Laurel

From: 
gpc-honest-brokers-boun...@listserv.kumc.edu
 [mailto:gpc-honest-brokers-boun...@listserv.kumc.edu] On Behalf Of Tamara 
McMahon
Sent: Friday, June 17, 2016 1:54 PM
To: 
gpc-honest-brok...@listserv.kumc.edu;
 gpc-dev@listserv.kumc.edu
Subject: GPC DEID Data Request: Immunoglobulin G Levels and the pattern of 
infection

All,

The GPC received a de-identified data request from Dr. Kate Sullivan of the 
PI-CONNECT PPRN.  This query contains labs and diagnosis (ICD-9 codes).  The 
query is located on Babel at Shared\PI-Connect\PIConnect[6-17-2016].   Attached 
is a description of the search and output criteria.  The stratification does 
not need to be included in the query.

Data files should be created using the data builder. You can read about the 
data builder output and how it is 
made
 and about the data 
summary.

Submit the data via this 
survey.

Note: I am unavailable next week but will be on the GPC-Dev call 6/28 to 
discuss any questions about this query or data request.

The following institutions have DROC approval and can submit their data at any 
time.

KUMC
Indiana
Iowa
MCW
Marshfield
Missouri
Nebraska
UTHSC-SA

The following sites do not have DROC approval yet.  Please do not submit until 
approval is in place for your institution.

Minnesota
UTSW
Wisconsin

The following sites are not required to run the query.

CMH

Each site that provides data will be reimbursed $500.

Regards,
Tamara McMahon
Director, Engineering & 

RE: Bariatric technical specs, functional specs: next steps?

[McClay, James C]

Yes, they became available last week. I've been traveling and haven't fully 
digested the material provided. We will share this week and figure out a work 
plan.

James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu<mailto:jmcc...@unmc.edu>
www.linkedin.com/in/infodoc<http://www.linkedin.com/in/infodoc>
Twitter: @jmcclay
402-559-3587

From: Dan Connolly [mailto:dconno...@kumc.edu]
Sent: Monday, May 16, 2016 10:32 AM
To: McClay, James C <jmcc...@unmc.edu>
Cc: <gpc-dev@listserv.kumc.edu> <gpc-dev@listserv.kumc.edu>; Brittany Zschoche 
<bzscho...@kumc.edu>
Subject: Bariatric technical specs, functional specs: next steps?

Jim,

I learned that these 
specs<https://pcornet.imeetcentral.com/obesityprojects/folder/7647050/> became 
available recently; is there anything we should do with them?

--
Dan

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RE: [gpc-informatics] #473: PCORnet CDMv3 SAS prep-to-research Readiness

[McClay, James C]

Brittany,
I'm getting some conflicting messages. Russ W asked for draft comments by this 
Friday. Is this still necessary?
Jim

James McClay, MD
jmcc...@unmc.edu
402-559-3587

-Original Message-
From: GPC Informatics [mailto:d...@madmode.com]
Sent: Wednesday, May 11, 2016 8:38 AM
To: bzscho...@kumc.edu; verhagen.lau...@mcrf.mfldclin.edu; jd...@umn.edu; 
dconno...@kumc.edu; b...@uthscsa.edu; ngra...@kumc.edu; mprit...@kumc.edu; 
nate.apa...@cerner.com; mo...@health.missouri.edu; Campbell, James R 
<campb...@unmc.edu>; kwa...@uwhealth.org; Mudgapalli, Ashok 
<ashok.mudgapa...@unmc.edu>; McClay, James C <jmcc...@unmc.edu>; m...@wisc.edu; 
Pedersen, Jay G <jay.peder...@unmc.edu>; adfre...@regenstrief.org
Cc: gpc-dev@listserv.kumc.edu; darcy.lou...@duke.edu; tachina...@wisc.edu
Subject: Re: [gpc-informatics] #473: PCORnet CDMv3 SAS prep-to-research 
Readiness

#473: PCORnet CDMv3 SAS prep-to-research Readiness
-+
 Reporter:  bzschoche|   Owner:  lv
 Type:  enhancement  |  Status:  accepted
 Priority:  major|   Milestone:  data-domains3
Component:  data-stds|  Resolution:
 Keywords:   |  Blocked By:  381, 486
 Blocking:   |
-+

Comment (by lv):

 New guidance from DRN OC:

 1. Please do NOT fix errors and resubmit your Data Characterization Query  at 
this time  2. You must first submit a written response (using the template 
provided  in Appendix B of the memo) as to how the issues will be addressed. 
This is  due by May 20th.
 3. After review by the DRN OC, you may be sent a new  Data  Characterization 
to respond to.

 All Datamarts with issues identified will be required to complete the  
following steps.
 1. By '''Friday May 20th''', Datamarts will send the DRN OC a written  
response that describes how they propose to address the issues identified  and 
the time required to implement the solution. Appendix B (attached to  this 
ticket) contains a template for this response. If the issue cannot be  fixed, 
the Datamart should explain why.
 2. The DRN OC will evaluate the written response and provide its  assessment 
to PCORI by '''June 9'''.
 3. By '''June 10''',  Datamarts who have responded satisfactorily via  written 
response will be asked to address the technical issue(s) and re-  run the Data 
Characterization query.
 4. By '''June 24''', all Datamarts are expected to complete and submit the  
Data Characterization query to the DRN OC  5. The DRN OC will evaluate the 
query responses and provide PCORI with its  assessment by '''July 15'''.
 6. For Datamarts that have not successfully completed the steps by'''
 August 1,''' PCORI will initiate discussions with the CDRN PI about the  
future status of these Datamarts.


 '''Upcoming Data Characterization Office Hours:'''
 Thursday, May 12, 2016
 2:00 pm  |  Eastern Daylight Time (New York, GMT-04:00)  |  1 hr

 Join by phone
 1-855-244-8681 Call-in toll-free number (US/Canada)
 1-650-479-3207 Call-in toll number (US/Canada)  Access code: 738 550 410

 Monday, May 16, 2016
 1:00 pm  |  Eastern Daylight Time (New York, GMT-04:00)  |  1 hr

 Join by phone
 1-855-244-8681 Call-in toll-free number (US/Canada)
 1-650-479-3207 Call-in toll number (US/Canada)  Access code: 732 916 579

--
Ticket URL: 
<http://informatics.gpcnetwork.org/trac/Project/ticket/473#comment:69>
gpc-informatics <http://informatics.gpcnetwork.org/>
Greater Plains Network - Informatics

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RE: PCORnet DRN OC update and CDM Implementation Call

[McClay, James C]

Question,
Is the GPC participating in the weight cohort study? Our discussion at the 
Bariatric Kick-off meeting led me to believe that was a completed project.
jm

James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu
www.linkedin.com/in/infodoc
Twitter: @jmcclay
402-559-3587

From: gpc-dev-boun...@listserv.kumc.edu 
[mailto:gpc-dev-boun...@listserv.kumc.edu] On Behalf Of Brittany Zschoche
Sent: Tuesday, March 08, 2016 11:01 AM
To: gpc-dev@listserv.kumc.edu
Subject: PCORnet DRN OC update and CDM Implementation Call

GPC-Dev,
Please see the DRN OC update below, provided by PCORnet PMO on March 7th.  It 
includes call-in information to a CDM Implementation call next Monday, March 
14th.


  *   The Empirical Data Characterization Report Template and a list of the 
Data Checks are available 
here.
  *   The weight cohort code has been released to production. All documentation 
(tech specs, work plan and code package) are available 
here.
  *   Information on PCORnet query fulfillment can be found 
here.
Upcoming Calls

CDM Implementation Interest Group

The ENCOUNTER Interest Group held a call on Monday, March 7th at 2:00 PM ET.  
If you are interested in participating in the future, please email Michael 
Park.


ADAPTABLE Data Strategy
Friday, March 11th from 10:00 - 11:00 AM ET.

WebEx 
information

Meeting number: 735 068 597
Meeting password:aspirin
Please email Lisa Eskenazi with any questions.

PCORnet CDM Implementation Forum
The purpose of the CDM forum is discussion related to CDM interpretation and 
implementation. The main participants are expected to be ETL teams and 
implementation leadership centered around this activity, and we hope to connect 
people in different networks who may have similar challenges. Each meeting will 
be centered around specific topics.

WHEN: Monday, March 14th, 12:30 PM - 1:30 PM ET
WHO: All interested. This session will be hosted by Mike Hogarth, MD, and 
Daniella Meeker, PhD and facilitated by Shelley Rusincovitch and Michelle 
Smerek.
Webex 
Information
 PLEASE LOGIN ONLINE FIRST BEFORE CALLING
Audio available via computer or phone.
PHONE: 1-855-244-8681 / Access code: 736 153 653

---

Brittany Zschoche, MBA
Project Manager, Enterprise Analytics & Medical Informatics
University of Kansas Medical Center
bzscho...@kumc.edu
913-588-4874

Request Help Here
www.kumc.edu/ea-mi
www.gpcnetwork.org


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RE: how to transfer oncology registry from CNExT to i2b2? [was: gpc-dev agenda item for 3/8]

[McClay, James C]

Just an FYI, last I knew Nebraska used Metriq for our NAACCR system.

James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu
www.linkedin.com/in/infodoc
Twitter: @jmcclay
402-559-3587

From: gpc-dev-boun...@listserv.kumc.edu 
[mailto:gpc-dev-boun...@listserv.kumc.edu] On Behalf Of Dan Connolly
Sent: Friday, March 04, 2016 9:48 AM
To: McDowell, Bradley D ; 
 
Subject: RE: how to transfer oncology registry from CNExT to i2b2? [was: 
gpc-dev agenda item for 3/8]

At 
HackathonThree,
 "We discussed vendor software used at various sites to manage NAACCR tumor 
registries." I guess it didn't seem worth recording the details, though, since 
that's all the 
notes
 show (aside from a few notes about KUMC's manual process).

So anyone who is willing to share their experience for the record, please do.

The premise of the HERON NAACCR 
ETL is that many sites 
are in the practice of submitting a NAACCR file to a state (or national?) 
registry. This exact file is the input to the ETL process. Case in point was 
MU's experience report in our 1 March 
call:
ToddM - Same organization to get data from Tumor Registry. Talked to registrar 
and explained what we need. The monthly extract they already send to the state 
worked fine. Had 5 years of extracts available for import.
Dan - that's how it's supposed to work. Great.
Does Iowa use CNExT to generate a NAACCR file? If so, you should be all set.

p.s. it's best to start the discussion in substance in email, leaving aside the 
question of whether we'll talk about it on a phone call. If, when you see the 
agenda come out, you don't see your item on it and you're not satisfied with 
the email discussion, you can always ask for it to be added.

--
Dan

From: 
gpc-dev-boun...@listserv.kumc.edu 
[gpc-dev-boun...@listserv.kumc.edu] on behalf of McDowell, Bradley D 
[bradley-mcdow...@uiowa.edu]
Sent: Thursday, March 03, 2016 11:08 AM
To: >
Subject: gpc-dev agenda item for 3/8
Our oncology registry uses the CNExT software, and we were wondering if other 
sites also use this tool. It would be helpful to know how other sites transfer 
data from that system to i2b2. Could we discuss this at the 3/8 dev group call?

Brad


Bradley D. McDowell, Ph.D.
Director, Population Research Core
Holden Comprehensive Cancer Center

5240 MERF | The University of Iowa | Iowa City, IA | 52242
Office: 319-384-1768


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RE: [gpc-informatics] #283: determine GPC funding status for bariatric study

[McClay, James C]

Sorry Dan,
The last communication about the Bariatric study from David Arterburn is dated 
10/22/15 in which he points out that PCORI is still considering a delay in the 
contracting/start date until 1/2016 in order to utilize the master contract 
under development by the PCORnet Contracting Workgroup.

The details describing the study start on slide 222.

I'm assuming we cannot close the ticket until we actually know something about 
the funding status for the bariatric study.
jm

James McClay, MD
jmcc...@unmc.edu
402-559-3587

-Original Message-
From: GPC Informatics [mailto:d...@madmode.com]
Sent: Friday, November 13, 2015 4:56 PM
To: bzscho...@kumc.edu; McClay, James C <jmcc...@unmc.edu>; dconno...@kumc.edu
Cc: rwait...@kumc.edu
Subject: Re: [gpc-informatics] #283: determine GPC funding status for bariatric 
study

#283: determine GPC funding status for bariatric study
-+---
 Reporter:  bzschoche|   Owner:  jmcclay
 Type:  task |  Status:  assigned
 Priority:  major|   Milestone:  bariatric-study-data
Component:  data-sharing |  Resolution:
 Keywords:  bariatric-study  |  Blocked By:
 Blocking:  266  |
-+---

Comment (by dconnolly):

 Jim, I'm looking for bariatric study info in that mini summit slide deck  
without luck. After reviewing about 40 slides, I realized the scope is  quite 
broad and there are 265 slides in the deck. Help us find the  relevant bits?

 Also, do you plan to do anything else about this ticket? If not, go ahead  and 
close it.

--
Ticket URL: 
<http://informatics.gpcnetwork.org/trac/Project/ticket/283#comment:9>
gpc-informatics <http://informatics.gpcnetwork.org/>
Greater Plains Network - Informatics

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RE: OK to share babel ontologies with selected collaborators from NYC-CDRN, SCILHS CDRNs?

[McClay, James C]

Dan,
You will be happy to know its Hubert that is building the NYC i2b2. Perhaps we 
loop him back in?
jm

James McClay, MD, MS, FACEP
Associate Professor, Emergency Medicine
Chair, UNMC Biomedical Informatics Program
981150 Nebraska Medical Center
Omaha, NE 68198-1150
jmcc...@unmc.edu
www.linkedin.com/in/infodoc
Twitter: @jmcclay
402-559-3587

From: gpc-dev-boun...@listserv.kumc.edu 
[mailto:gpc-dev-boun...@listserv.kumc.edu] On Behalf Of Dan Connolly
Sent: Wednesday, November 04, 2015 3:46 PM
To:  
Subject: OK to share babel ontologies with selected collaborators from 
NYC-CDRN, SCILHS CDRNs?

We've discussed collaboration with SCILHS at length. Folks from the NYC-CDRN 
(Cornell, in particular) are using the HERON code and working through Tumor 
Registry integration. Access to share tables via babel's web-based SQL IDE 
would facilitate the collaboration.

Our current agreement 
(#76) is "share with 
GPC, not all of PCORI nor public ". Is it OK if we extend this to selected 
collaborators from other CDRNs, at the discretion of Russ, Nathan, and myself?

--
Dan

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RE: Action Needed - PCORI Phase 2 Survey

[McClay, James C]

Hi I filled out the survey (T9MMWLCK) . I suppose some of it is creative 
writing given their lack of definitions.

Patients seen:
I ran a count of patient direct patient contact encounters for the year 2014 
from i2b2 to get an annual count.

I don't know what their population of high interest is so I put Rural.

Our data is of the highest quality.

Jim

From: gpc-dev-boun...@listserv.kumc.edu 
[mailto:gpc-dev-boun...@listserv.kumc.edu] On Behalf Of Brittany Zschoche
Sent: Monday, July 06, 2015 10:36 AM
To: gpc-dev@listserv.kumc.edu
Cc: Laura Fitzmaurice (lfitzmaur...@cmh.edu); 'prdex...@regenstrief.org'; 
gary-rosent...@uiowa.edu; 'Parker, Jerry C.'; 'm...@medicine.wisc.edu'; Umberto 
Tachinardi
Subject: Action Needed - PCORI Phase 2 Survey

Hi, everyone.

Late last week, PCORI sent an information request to Dr. Waitman.  The 
additional information will assist PCORI in evaluating GPC's Phase 2 
application.  This evaluation will occur at the Executive Committee meeting 
later this month, therefore we do not have any flexibility with our due date, 
and it relates directly to Phase 2 funding.

We request that answers are submitted by COB Friday, July 10th, and absolutely 
no later than Sunday, July 12th.  To expedite the gathering of information, we 
have created a REDCap 
surveyhttps://redcap.gpcnetwork.org/surveys/?s=WF7TLPAXW7.

Please make note of the following:


-  Re: geographical overlap - answer with patient duplication in mind

-  Re: number of patients transformed into CDM - answer using the same 
process used for previous interim reports

-  Query and linkage support is budgeted into the Phase 2 GPC budget at 
a central level

-  I emailed PCORI this morning to seek further clarification on the 
following:

o   Re: Patients seen at this site.

?  Do you have specific criteria to define seen?

?  Does this include anything that generates clinical data?

o   Re: Population of high interest.

?  Could you please provide examples of these populations?

o   Re: High quality of data.

?  Could you please provide context and definition?

o   I will forward responses as soon as I have them

Please let me know if you have any questions.

Brittany Zschoche, MBA
Project Manager, Enterprise Analytics  Medical Informatics
University of Kansas Medical Center
bzscho...@kumc.edumailto:bzscho...@kumc.edu
913-588-4874

Request Help Herehttps://redcap.kumc.edu/surveys/?s=qYxMmb
www.kumc.edu/ea-mihttp://www.kumc.edu/ea-mi
www.gpcnetwork.org


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PRO SUrvey URL

[McClay, James C]

Here is the survey URL

https://unmcredcap.unmc.edu/redcap/surveys/?s=A8ARFNCT7T



Jim


James McClay, MS, MD, FACEP
Associate Professor, Emergency Medicine
Chair, Biomedical Informatics Graduate Program
University of Nebraska Medical Center
402-559-3587, jmcc...@unmc.edu
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RE: General questions about registries

[McClay, James C]

Yes, well the idea is pretty lame ☺

I’m glad you know what I’m talking about.
Have you guys implemented this for a particular patient cohort?

James McClay, MS, MD, FACEP
Associate Professor, Emergency Medicine
Chair, Biomedical Informatics Graduate Program
University of Nebraska Medical Center
402-559-3587, jmcc...@unmc.edu
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From: Dan Connolly [mailto:dconno...@kumc.edu]
Sent: Friday, October 17, 2014 3:09 PM
To: McClay, James C; gpc-dev@listserv.kumc.edu
Subject: RE: General questions about registries

It's sufficiently obvious that our paper was rejected for insufficient novelty. 
;-)

But that's exactly what the HERON i2b2/REDCap stuff is all about.

Here's ticket comment from April about 
SIENEhttps://informatics.gpcnetwork.org/trac/Project/ticket/87#comment:16 
again:

We wrote up a manuscript a while back. The submission was declined, but we've 
had enough interest that we've decided to just share it.

We're in the process of adding it to ​KUMC's digital 
archivehttp://archie.kumc.edu/; meanwhile, I've attached it to this ticket in 
editable (MS Word) 
formathttps://informatics.gpcnetwork.org/trac/Project/attachment/ticket/87/Adagarla2014-Joint-Summits-submissionRusscomments8.docx​https://informatics.gpcnetwork.org/trac/Project/raw-attachment/ticket/87/Adagarla2014-Joint-Summits-submissionRusscomments8.docx
 and fixed (PDF) 
formathttps://informatics.gpcnetwork.org/trac/Project/attachment/ticket/87/1861442_File02.pdf​https://informatics.gpcnetwork.org/trac/Project/raw-attachment/ticket/87/1861442_File02.pdf.

  *   SEINE: Methods for Electronic Data Capture and Integrated Data Repository 
Synthesis with Patient Registry Use Cases
Bhargav Adagarla1, Daniel W. Connolly1, Tamara M. McMahon1, Manikandan Nair1, 
Lisa D. VanHoose3, Priyanka Sharma2, Linda J. D’Silva3, Lemuel R. Waitman1
1Division of Medical Informatics, 2Department of Internal Medicine, 3Physical 
Therapy and Rehabilitation Science, University of Kansas Medical Center, Kansas 
City, KS

Abstract
Integrated Data Repositories (IDR) allow clinical research to leverage 
electronic health records (EHR) and other data sources while Electronic Data 
Capture (EDC) applications often support manually maintained patient 
registries.  Using i2b2 and REDCap, (IDR and EDC platforms respectively) we 
have developed methods that integrate IDR and EDC strengths supporting: 1) data 
delivery from the IDR as ready-to-use registries to exploit the annotation and 
data collection capabilities unique to EDC applications; 2) integrating EDC 
managed registries into data repositories allows investigators to use 
hypothesis generation and cohort discovery methods. This round-trip integration 
can lower lag between cohort discovery and establishing a registry. 
Investigators can also periodically augment their registry cohort as the IDR is 
enriched with additional data elements, data sources, and patients. We describe 
our open-source automated methods and provide three example registry uses cases 
for these methods: triple negative breast cancer, vertiginous syndrome, cancer 
distress.

--
Dan

From: 
gpc-dev-boun...@listserv.kumc.edumailto:gpc-dev-boun...@listserv.kumc.edu 
[gpc-dev-boun...@listserv.kumc.edu] on behalf of McClay, James C 
[jmcc...@unmc.edu]
Sent: Friday, October 17, 2014 2:58 PM
To: gpc-dev@listserv.kumc.edumailto:gpc-dev@listserv.kumc.edu
Subject: General questions about registries
GPC informatics experts:
I have a number of investigators requesting the ability to have registry type 
functionality from our i2b2 environment. I will use COPD for an example but we 
need a generalizable solution available to any investigative team. They would 
like to tag patients participating in their registry (for example consented 
COPD patients), capture some patient reported outcomes (perhaps quality of 
life), and then enter additional information that either isn’t in the EHR or 
isn’t in coded form (i.e. specific measurements from the Chest CT in COPD 
patients.)

Russ, I know the Heron network keeps track of patients who have consented to 
participate in general but this would be for specific patients who have 
consented to participate and are followed by a clinic.

My thought is to add a flag in i2b2 that would ID these patients, capture PRO 
through REDCap, provide a mechanism in REDCap to display reports such as Echo 
or CT, provide the investigator a form for capturing structured data and then 
link that back to i2b2. I know we have discussed NLP but I still don’t think it 
reliable enough for this setting.

My question: is the patently obvious how to do this or do we need to do some 
development?
Jim

James McClay, MS, MD, FACEP
Associate Professor, Emergency

RE: gpc-dev 10 June agenda: what's up at your site?

[McClay, James C]

Here is the bullet list from Nebraska
1) To date UNMC has installed Research Copy of Clarity, i2b2 server and created 
de-identified version of i2b2 that contains demographics, diagnosis, and 
problem lists.
2) Currently working on loading encounters and observations
3) Procedure data has been extracted from our previous GE Centricity Enterprise 
system
4) Summer Intern who is Oracle DBA certified started
5) Servers are now directly connected with 1Gb pipe
6) We've tracked down the cancer reporting file that is reported to the state 
and can load it into i2b2
7) We have met with our various registry managers to confirm availability for 
integration
8) We have met with Our Public Health Data Center to get the CMS Death Registry
9) This past week we identified a system problem in our Research Server where 
the IT department loaded workstation patches rather than server patches. We 
will take down the server and reload the server software this coming weekend.
10) Additional RAM ordered for servers
11) Full time data base administrator being hired
12) Final tuning of Oracle server has not taken place
13) Dr. Campbell continues to capably lead the GPC data standardization work

Do I win??

James McClay, MS, MD, FACEP
Associate Professor, Emergency Medicine
Chair, Biomedical Informatics Graduate Program
University of Nebraska Medical Center
402-559-3587, jmcc...@unmc.edu
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From: gpc-dev-boun...@listserv.kumc.edu 
[mailto:gpc-dev-boun...@listserv.kumc.edu] On Behalf Of Dan Connolly
Sent: Monday, June 09, 2014 2:33 PM
To: gpc-dev@listserv.kumc.edu
Subject: RE: gpc-dev 10 June agenda: what's up at your site?

What are the main (informatics related) things going on at your site?

Bonus points for letting everybody know by email before tomorrow's call.

Otherwise, we'll talk about it then.

The work by site 
listhttps://informatics.gpcnetwork.org/trac/Project/wiki/DevTeams#WorkBySite 
is getting a little stale; here's hoping we can update it.

--
Dan

From: Dan Connolly
Sent: Monday, June 09, 2014 12:16 PM
To: gpc-dev@listserv.kumc.edumailto:gpc-dev@listserv.kumc.edu
Subject: gpc-dev 10 June agenda: in progress
I'm running a bit behind today; stay tuned...


--
Dan

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RE: [Gpc-dev] gpc-dev weekly teleconference

[McClay, James C]

I'll be late to the development meeting.


Sent on the new Sprint Network from my Samsung Galaxy S®4.

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RE: PCORnet: Draft Common Data Model 1.0

[McClay, James C]

I have to echo Ed Hammond's comments about prior work on clinical data elements 
and acceptable value sets. It doesn't make sense for PCORI to go off and create 
another ad-hoc data set. As an example we just completed and balloted the HL7 
Data Elements for Emergency Department Systems 
(https://www.hl7.org/implement/standards/product_brief.cfm?product_id=326) 
incorporating standard representations.

I'll leave it to Jim Campbell to carry issues to the DSSNI.
Jim

James McClay, MS, MD, FACEP
Associate Professor, Emergency Medicine
Chair, Biomedical Informatics Graduate Program
University of Nebraska Medical Center
402-559-3587, jmcc...@unmc.edu
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From: gpc-dev-boun...@listserv.kumc.edu 
[mailto:gpc-dev-boun...@listserv.kumc.edu] On Behalf Of Russ Waitman
Sent: Wednesday, March 19, 2014 4:09 PM
To: GPC-DEV@LISTSERV.KUMC.EDU
Subject: FW: PCORnet: Draft Common Data Model 1.0

FYI

Look forward to GPC thoughts.  I'll also draft my thoughts this week and share 
with the GPC and in turn with PCORNet and in preparation for the March 30th in 
person meeting,

Russ


From: Dr Ed Hammond, Ph.D. [mailto:william.hamm...@duke.edu]
Sent: Wednesday, March 19, 2014 1:04 PM
To: 'Rosenbloom, Trent'; Jenny Ibarra; Lesley Curtis; 
'jeff_br...@harvardpilgrim.org'; 'Brie Purcell; Shelley Rusincovitch; 'Rachael 
Fleurence; 'sgre...@pcori.org'; 'sdaughe...@pcori.org'; 'swa...@pcori.org'; 
'snmur...@partners.org'; 'trent.rosenbl...@vanderbilt.edu'; 'dmee...@rand.org'; 
'campb...@unmc.edu'; 'michael.k...@ucdenver.edu'; 'wo...@email.chop.edu'; 
'hripc...@columbia.edu'; 'abel@nmff.org'; 'pu...@ochin.org'; 
'tuf21...@temple.edu'; 's...@medicine.ucsf.edu'; 'keith.mars...@cchmc.org'; 
'kristen_an...@med.unc.edu'; 'mruesch...@partners.org'; 
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'avsher...@partners.org'; 'paul_avill...@hms.harvard.edu'; 
'sulli...@mail.med.upenn.edu'; 'youn...@epi.usf.edu'; 'rtw...@mednet.ucla.edu'; 
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'dixie.ba...@martin-blanck.com'; Maryan Zirkle; Shanbhag, Avinash (HHS/ONC; 
jcur...@uab.edumailto:jcur...@uab.edu; JV Selby; Joanne Cochrane; 
rive...@ochin.orgmailto:rive...@ochin.org; Travis Crayton; Bauck, Alan; 
Durham, Mary, Ph.D.; Blake, Michelle A; Laws, Reesa; Day, Michele; 
christine.dy...@hhs.govmailto:christine.dy...@hhs.gov; 
rru...@rand.orgmailto:rru...@rand.org; 
jessica_malenf...@harvardpilgrim.orgmailto:jessica_malenf...@harvardpilgrim.org;
 
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M.; nger...@ghlf.orgmailto:nger...@ghlf.org; 
mbr...@pcori.orgmailto:mbr...@pcori.org; Borromeo, Charles; Beller, Marc; 
jeff.kl...@mgh.harvard.edumailto:jeff.kl...@mgh.harvard.edu; Dori Bilik; 
Goel, Satyender (NU; rjesr...@rti.orgmailto:rjesr...@rti.org; 
msulli...@lincolnpeak.commailto:msulli...@lincolnpeak.com; 
bs...@lincolnpeak.commailto:bs...@lincolnpeak.com; Wehbe, Firas; 
rj...@lphi.orgmailto:rj...@lphi.org; 
kimberly.l...@channing.harvard.edumailto:kimberly.l...@channing.harvard.edu; 
Richard Platt richard_pl...@harvard.edumailto:richard_pl...@harvard.edu 
(richard_pl...@harvard.edumailto:richard_pl...@harvard.edu); 
chelsea_jen...@harvardpilgrim.orgmailto:chelsea_jen...@harvardpilgrim.org; 
'matthew_gill...@hms.harvard.edu'; Robert Califf, M.D.
Cc: 
kenneth.ma...@childrens.harvard.edumailto:kenneth.ma...@childrens.harvard.edu;
 Rothman, Russell; lohnomach...@ucsd.edumailto:lohnomach...@ucsd.edu; Russ 
Waitman; elizabeth.a.mcgl...@kp.orgmailto:elizabeth.a.mcgl...@kp.org; 
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forre...@email.chop.edumailto:forre...@email.chop.edu; 
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mpletc...@epi.ucsf.edumailto:mpletc...@epi.ucsf.edu; 
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anierenb...@mgh.harvard.edumailto:anierenb...@mgh.harvard.edu; Laura 
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meganobo...@gmail.commailto:meganobo...@gmail.com;