REDCap version... (was Re: GPC-Dev Agenda 4-21)
Looking on the REDCap website, the most recent LTS versions is 6.0.24. There have been no LTS releases that support this Survey Code extension to REDCap that I can see. If past history is any indicator, we might not see a Long-Term-Support release of REDCap that supports this functionality until Aug or Sept this year. -TM On 4/21/2015 10:42 AM, Thomas F Mish wrote: Wisconsin is at 5.9.mumble... I don't currently have an ETA for getting to 6.1.x. We tend to stick with LTS releases by policy. Without digging up my REDCap wiki username and password, does anyone know what version that would be? -TM On 4/21/2015 9:09 AM, Munns, Michael B wrote: UNMC 6.4.4 Michael Munns Database Analyst 402-559-3821 *From:*gpc-dev-boun...@listserv.kumc.edu [mailto:gpc-dev-boun...@listserv.kumc.edu] *On Behalf Of *Bos, Angela *Sent:* Monday, April 20, 2015 5:44 PM *To:* Dan Connolly; Apathy, Nate; gpc-dev@listserv.kumc.edu *Subject:* RE: GPC-Dev Agenda 4-21 Sorry for the late request, but could we add the following topic for the obesity survey: What version of Redcap are you running? How soon could your site potentially achieve 6.1.x? We would like to use Redcap “access code” functionality introduced in 6.1.0. Used in conjunction with participant lists, it allows a user to enter a general survey URL, then requires them to enter a non-case-sensitive 9-character access code to go to their unique survey link. -Angela | UTHSCSA *From:*gpc-dev-boun...@listserv.kumc.edu mailto:gpc-dev-boun...@listserv.kumc.edu [mailto:gpc-dev-boun...@listserv.kumc.edu] *On Behalf Of *Dan Connolly *Sent:* Monday, April 20, 2015 3:30 PM *To:* Apathy,Nate; gpc-dev@listserv.kumc.edu mailto:gpc-dev@listserv.kumc.edu *Subject:* RE: GPC-Dev Agenda 4-21 Thanks for getting the ball rolling, Nate. I went over our business and made some adjustments. Note in particular that I dropped items where I couldn't find an update shared with the group. Reminder: if anyone wants something on the agenda, please send mail or update a ticket before 10am Monday. You can, of course, ask to have something added when we review the agenda at the beginning of the call, but things work better if materials are available in advance. 1.Convene, take roll, review records and plan next meeting. a.Meeting ID and access code: 817-393-381 https://global.gotomeeting.com/meeting/join/817393381; call +1 (571) 317-3131 b.roll: all 10DevTeams https://informatics.gpcnetwork.org/trac/Project/wiki/DevTeamsrepresented? i.KUMC, CMH, UIOWA, WISC, MCW, MCRF, UMN, UNMC, UTHSCSA, UTSW, (MU), (IU) ii.Reminder - put institution after your name on the GoToMeeting (preferences) c.meeting notes (#12 https://informatics.gpcnetwork.org/trac/Project/ticket/12): previous notes OK? today's scribe: Nate A (Cerner/CMH) comments on the agenda? /chair dropped items where no update was available as of ~/T-24hrs i.recent tickets opened/closed FYI: 1.#165: https://informatics.gpcnetwork.org/trac/Project/ticket/165PopMedNet @ UTSW - closed 2.#270 http://informatics.gpcnetwork.org/trac/Project/ticket/270- Port Q1 QA query to Oracle opened 3.note also recent ticket comments report https://informatics.gpcnetwork.org/trac/Project/report/13 d.Next Meeting April 28th: scribe? 2.#78 Shared GPC RxNORM/NDFRT medications ontology https://informatics.gpcnetwork.org/trac/Project/ticket/78re-opened; also #236 https://informatics.gpcnetwork.org/trac/Project/ticket/236 a.Nate sent list of non-SCDF codes http://listserv.kumc.edu/pipermail/gpc-dev/2015q2/001525.htmlto group 1.#158 Usable LOINC Labs - March 27 comment https://informatics.gpcnetwork.org/trac/Project/ticket/158#comment:28proposes that Jan 19 details https://informatics.gpcnetwork.org/trac/Project/ticket/158#comment:20suffice a.KUMC’s experience is positive so far, though we haven’t released b.is what’s on babel consistent with Jan 19 details? 1.milestone:data-quality3 https://informatics.gpcnetwork.org/trac/Project/milestone/data-quality3 a./#270/(Port Q1 QA query to Oracle) closed https://informatics.gpcnetwork.org/trac/Project/ticket/270#comment:2 1.milestone:bc-survey-cohort-def (depgraph https://informatics.gpcnetwork.org/trac/Project/depgraph/ticket/227): a.#271 https://informatics.gpcnetwork.org/trac/Project/ticket/271IRB-wait b.#264 https://informatics.gpcnetwork.org/trac/Project/ticket/264confirm governance and workflow: ~7 sites responded 1.Milestone: obesity-survey-def https://informatics.gpcnetwork.org/trac/Project/milestone/obesity-survey-def a.#252 test results from wisc https://informatics.gpcnetwork.org/trac/Project/ticket/252#comment:5 1.milestone:cohort-char1 https://informatics.gpcnetwork.org/trac/Project/milestone/cohort-char1 a.#258 https://informatics.gpcnetwork.org/trac/Project/ticket/258volunteer to take a whack at breast cancer treatment from NAACCR? 1.#242 https://informatics.gpcnetwork.org/trac/Project/ticket/242- Nate
Re: GPC-Dev Agenda 4-21
Wisconsin is at 5.9.mumble... I don't currently have an ETA for getting to 6.1.x. We tend to stick with LTS releases by policy. Without digging up my REDCap wiki username and password, does anyone know what version that would be? -TM On 4/21/2015 9:09 AM, Munns, Michael B wrote: UNMC 6.4.4 Michael Munns Database Analyst 402-559-3821 *From:*gpc-dev-boun...@listserv.kumc.edu [mailto:gpc-dev-boun...@listserv.kumc.edu] *On Behalf Of *Bos, Angela *Sent:* Monday, April 20, 2015 5:44 PM *To:* Dan Connolly; Apathy, Nate; gpc-dev@listserv.kumc.edu *Subject:* RE: GPC-Dev Agenda 4-21 Sorry for the late request, but could we add the following topic for the obesity survey: What version of Redcap are you running? How soon could your site potentially achieve 6.1.x? We would like to use Redcap “access code” functionality introduced in 6.1.0. Used in conjunction with participant lists, it allows a user to enter a general survey URL, then requires them to enter a non-case-sensitive 9-character access code to go to their unique survey link. -Angela | UTHSCSA *From:*gpc-dev-boun...@listserv.kumc.edu mailto:gpc-dev-boun...@listserv.kumc.edu [mailto:gpc-dev-boun...@listserv.kumc.edu] *On Behalf Of *Dan Connolly *Sent:* Monday, April 20, 2015 3:30 PM *To:* Apathy,Nate; gpc-dev@listserv.kumc.edu mailto:gpc-dev@listserv.kumc.edu *Subject:* RE: GPC-Dev Agenda 4-21 Thanks for getting the ball rolling, Nate. I went over our business and made some adjustments. Note in particular that I dropped items where I couldn't find an update shared with the group. Reminder: if anyone wants something on the agenda, please send mail or update a ticket before 10am Monday. You can, of course, ask to have something added when we review the agenda at the beginning of the call, but things work better if materials are available in advance. 1.Convene, take roll, review records and plan next meeting. a.Meeting ID and access code: 817-393-381 https://global.gotomeeting.com/meeting/join/817393381; call +1 (571) 317-3131 b.roll: all 10DevTeams https://informatics.gpcnetwork.org/trac/Project/wiki/DevTeamsrepresented? i.KUMC, CMH, UIOWA, WISC, MCW, MCRF, UMN, UNMC, UTHSCSA, UTSW, (MU), (IU) ii.Reminder - put institution after your name on the GoToMeeting (preferences) c.meeting notes (#12 https://informatics.gpcnetwork.org/trac/Project/ticket/12): previous notes OK? today's scribe: Nate A (Cerner/CMH) comments on the agenda? /chair dropped items where no update was available as of ~/T-24hrs i.recent tickets opened/closed FYI: 1.#165: https://informatics.gpcnetwork.org/trac/Project/ticket/165PopMedNet @ UTSW - closed 2.#270 http://informatics.gpcnetwork.org/trac/Project/ticket/270- Port Q1 QA query to Oracle opened 3.note also recent ticket comments report https://informatics.gpcnetwork.org/trac/Project/report/13 d.Next Meeting April 28th: scribe? 2.#78 Shared GPC RxNORM/NDFRT medications ontology https://informatics.gpcnetwork.org/trac/Project/ticket/78re-opened; also #236 https://informatics.gpcnetwork.org/trac/Project/ticket/236 a.Nate sent list of non-SCDF codes http://listserv.kumc.edu/pipermail/gpc-dev/2015q2/001525.htmlto group 1.#158 Usable LOINC Labs - March 27 comment https://informatics.gpcnetwork.org/trac/Project/ticket/158#comment:28proposes that Jan 19 details https://informatics.gpcnetwork.org/trac/Project/ticket/158#comment:20suffice a.KUMC’s experience is positive so far, though we haven’t released b.is what’s on babel consistent with Jan 19 details? 1.milestone:data-quality3 https://informatics.gpcnetwork.org/trac/Project/milestone/data-quality3 a./#270/(Port Q1 QA query to Oracle) closed https://informatics.gpcnetwork.org/trac/Project/ticket/270#comment:2 1.milestone:bc-survey-cohort-def (depgraph https://informatics.gpcnetwork.org/trac/Project/depgraph/ticket/227): a.#271 https://informatics.gpcnetwork.org/trac/Project/ticket/271IRB-wait b.#264 https://informatics.gpcnetwork.org/trac/Project/ticket/264confirm governance and workflow: ~7 sites responded 1.Milestone: obesity-survey-def https://informatics.gpcnetwork.org/trac/Project/milestone/obesity-survey-def a.#252 test results from wisc https://informatics.gpcnetwork.org/trac/Project/ticket/252#comment:5 1.milestone:cohort-char1 https://informatics.gpcnetwork.org/trac/Project/milestone/cohort-char1 a.#258 https://informatics.gpcnetwork.org/trac/Project/ticket/258volunteer to take a whack at breast cancer treatment from NAACCR? 1.#242 https://informatics.gpcnetwork.org/trac/Project/ticket/242- Nate A. asks Apr 16 “where can we find the necessary attachments and code to attempt this? ...” 2. milestone:data-domains3 currently has no due date; is that OK? are there any customers waiting? -- Dan *From:*gpc-dev-boun...@listserv.kumc.edu mailto:gpc-dev-boun...@listserv.kumc.edu
Re: Medication Mapping Issue (standardization measurement framework, milestone:data-quality3)
I wasn't planning on adding the medication numbers in this go around, the major expansion of data was going to be around the three specific cohort characterizations this go around. Do we think there will be much alignment around medication information in the individual databases this quarter, or would it be better to wait until next quarter when more work on aligning has been accomplished with medications? -TM On 3/20/2015 3:19 PM, Dan Connolly wrote: Nate, Thanks for sharing these numbers on terms matched and volume/facts matched. This is exactly the sort of data that we originally proposed to collect: * GPC Interoperable Standardization Measurement Framework https://informatics.gpcnetwork.org/trac/Project/wiki/DataStandardization#data-stds-framework I just created a spreadsheet and put those numbers in it: * GPC Terminology Alignment Progress https://docs.google.com/spreadsheets/d/1ywbW9rusve8sptB9RVESnpGwRUnwSJ9q_tBakhE8INo/edit?usp=sharing Bonus points to anyone else who shares similar sorts of data. Tom, Jim, I hope the QA queries will produce this sort of data. I'm interested to know if you think that's feasible in this March go-round. -- Dan *From:* gpc-dev-boun...@listserv.kumc.edu [gpc-dev-boun...@listserv.kumc.edu] on behalf of Apathy,Nate [nate.apa...@cerner.com] *Sent:* Wednesday, February 18, 2015 2:37 PM *To:* Russ Waitman *Cc:* gpc-dev@listserv.kumc.edu *Subject:* RE: Medication Mapping Issue Hi all, We’ve been exploring a similar issue with medication mapping to the central RxCUI ontology proposed by KUMC. Though we’re not an Epic site, we are in the middle of transitioning from NDC to RxCUI/RxNORM as our primary medication terminology in order to align with GPC. We’ve done several mappings using different versions of mapping content from NDC to RxCUI, and our closest match (to the ontology) merits about 2,300 matches with the RxCUI ontology out on Babel, which contains about 5,500 RxCUI codes. We have 11,000 unique RxCUI codes from our mappings using the USNLM mapping content, so we’re not getting a good amount of those represented with the current GPC RxCUI ontology. The real kicker is that those 2,300 matches only represent about 1.5% of the total volume of medication data that we have, so while it is about half of the ontology, it’s significantly less representative of the total amount of potential data that could be represented if all of our codes were matched in the ontology. We’re wondering if the ontology is at a specific level of granularity that we haven’t accommodated in our mappings, which is making our terms misalign with the precise codes used in the GPC RxCUI ontology. Any help would be greatly appreciated! Thanks for raising this question, Phillip! *Nate Apathy* Solution Manager: i2b2, Cerner Research *From:*gpc-dev-boun...@listserv.kumc.edu [mailto:gpc-dev-boun...@listserv.kumc.edu] *On Behalf Of *Russ Waitman *Sent:* Wednesday, February 18, 2015 1:29 PM *To:* Bonnie Westra *Cc:* gpc-dev@listserv.kumc.edu *Subject:* Re: Medication Mapping Issue Somewhat similar to Nathan’s experience incorporating the MedEx NLP work for meds here in KC to RxNorm that is documented in the HERON code and informatics.kumc.edu https://urldefense.proofpoint.com/v2/url?u=http-3A__informatics.kumc.edud=AwMF-gc=NRtzTzKNaCCmhN_9N2YJR-XrNU1huIgYP99yDsEzaJor=uOh5Q3hepVRzk8WwKUjG80B3swu7bu8ArEfLHUfXY1Um=2jqKMv3zAo-ZqlOBIJLdpdOLG2dk18Skla3R7OgVwbks=v3FTqCdPhYkkqSG4CFEcQsNtcSW6nZzPOQc85wngH6Me= wiki Russ On Feb 18, 2015, at 12:46 PM, Bonnie Westra westr...@umn.edu mailto:westr...@umn.edu wrote: Using the NLM app for mapping medication data to RxNorm, we developed a set of rules when there was no NDC or Medispan code available for mapping. The bottom line is that when there is missing data, we ended up with a more generic RxNorm codes. When we had sufficient details, we were able to map to a more specific code. Bonnie Bonnie L. Westra, PhD, RN, FAAN, FACMI Associate Professor, University of Minnesota, School of Nursing Institute for Health Informatics Director, Center for Nursing Informatics Location - WDH 6-155 P - 612-625-4470, Fax - 612-625-7091 email - westr...@umn.edu mailto:westr...@umn.edu Mail - WDH 5-140, 308 Harvard St SE, Minneapolis, MN 55455 On Wed, Feb 18, 2015 at 12:18 PM, Phillip Reeder phillip.ree...@utsouthwestern.edu mailto:phillip.ree...@utsouthwestern.edu wrote: We have medications in our clarity_medication table that are not as specific as the GPC Medication hierarchy. For example, we have a medication called “ZOLOFT ORAL” This has multiple GCNs associated with it for the 25MG, 50MG, and 100MG versions, and the oral concentrate version. And the current medication mapping code adds the medications under all of the versions. I’m guessing we have this issue because we have been running Epic at UTSW
Re: GPC Lab Tree Construction Methodology
WISC started with what simply came out of the raw EPIC system (lab components with LOINC when available). -TM On 11/13/2014 1:52 PM, Belay Demeke wrote: Hello All, Looking at the i2b2 Laboratory Test hierarchy construction, it appeared that many sites use different methodologies. For instance, KUMC is built based on EMR, UMNC based on Regenstrief Institute's LOINC tree, UMN based on UMLS, and MCRF based on Harvard(LLB22/i2b2/SHRINE). Our goal is to find out which tree construction methodology is used for the following sites - MCW, CMH, UIowa, UTSW, UTHSCA and WISC. Can you please send us your feedback what methodology used at your site? Thank you, Belay Demeke ___ Gpc-dev mailing list Gpc-dev@listserv.kumc.edu http://listserv.kumc.edu/mailman/listinfo/gpc-dev ___ Gpc-dev mailing list Gpc-dev@listserv.kumc.edu http://listserv.kumc.edu/mailman/listinfo/gpc-dev
Re: QA query text and sample output
Just a gentle reminder everyone. Per milestone 2.6 (see TRAC issue #180 https://informatics.gpcnetwork.org/trac/Project/ticket/180) we should be gathering our results from the QA queries and sending them to me before the end of the month (that's Friday this week). So far only one site has submitted their results to me. Debbie reposted some some cleaned up queries back on the 23rd. I've attached these to ticket 180 for your reference. If you've got questions, please don't be silent. -Tom Mish PS: I'm concerned that the Royals may have been distracted by our lack of progress towards milestone 2.6 in game 5. I would hate for the Giants to win simply because we distracted the Royals. ;-) On 10/23/2014 2:58 PM, Debbie Yoshihara wrote: Hi, Here's the queries I ran at UW-Madison and some sample output. The sample output is for example only and does not reflect reality. If you haven't run the queries yet, for Q5, if you could reverse the ordering of number of occurrences and score range that would be great because then all the queries have the count, then the text. If not, no worries, we will look at the data and switch the results when we enter then into the database. Debbie ___ Gpc-dev mailing list Gpc-dev@listserv.kumc.edu http://listserv.kumc.edu/mailman/listinfo/gpc-dev ___ Gpc-dev mailing list Gpc-dev@listserv.kumc.edu http://listserv.kumc.edu/mailman/listinfo/gpc-dev
Re: Boston i2b2
I will be going to Boston this year for the i2b2 meeting from WISC. -Tom Mish On 6/10/2014 1:47 PM, Fothergill, Rita, R wrote: I will not be attending from CMH (away on vacation). I'm not sure if anyone else will. No one from the technical team is going, since it's just mainly me. Rita *From:*gpc-dev-boun...@listserv.kumc.edu [mailto:gpc-dev-boun...@listserv.kumc.edu] *On Behalf Of *Tirado-Ramos, Alfredo *Sent:* Tuesday, June 10, 2014 12:29 PM *To:* Campbell, James R; gpc-dev@listserv.kumc.edu *Subject:* Re: Boston i2b2 San Antonio will have 4 people there as well. A *From: *Campbell, James R campb...@unmc.edu mailto:campb...@unmc.edu *Date: *Tuesday, June 10, 2014 at 11:53 AM *To: *gpc-dev@listserv.kumc.edu mailto:gpc-dev@listserv.kumc.edu gpc-dev@listserv.kumc.edu mailto:gpc-dev@listserv.kumc.edu *Subject: *Boston i2b2 UNMC has 4 people going to Boston. JimC will be there for meetings with SCILHS on the 9^th and everyone else will be available on the 10^th and 11^th James R. Campbell MD campb...@unmc.edu mailto:campb...@unmc.edu Office 402-559-7505 Secretary 402-559-7299 Fax 402-559-8396 Pager 402-888-1230 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. Electronic mail from Children's Mercy Hospitals and Clinics. This communication is intended only for the use of the addressee. It may contain information that is privileged or confidential under applicable law. If you are not the intended recipient or the agent of the recipient, you are hereby notified that any dissemination, copy or disclosure of this communication is strictly prohibited. If you have received this communication in error, please immediately forward the message to Children's Mercy Hospital's Information Security Officer via return electronic mail at informationsecurityoffi...@cmh.edu and expunge this communication without making any copies. Thank you for your cooperation. ___ Gpc-dev mailing list Gpc-dev@listserv.kumc.edu http://listserv.kumc.edu/mailman/listinfo/gpc-dev ___ Gpc-dev mailing list Gpc-dev@listserv.kumc.edu http://listserv.kumc.edu/mailman/listinfo/gpc-dev
