Marshfield reviewed and doesn't have major comments. In general the document is a bit vague. It's also not clear from the specification and footnote how to handle the Access to the Internet (4.)
Locally we need to investigate how we'll add Allergy information (3.A.) and Pregnancy (7.A.); we're already working on integrating Tobacco Usage (8.H.) into our December refresh. Thanks, Laurel From: [email protected] [mailto:[email protected]] On Behalf Of Dan Connolly Sent: Wednesday, November 18, 2015 3:33 PM To: Swander, Lena C; [email protected] Subject: RE: ADAPTABLE Base Phenotype Feedback (by Friday, Nov. 20) On second thought, the work<https://urldefense.proofpoint.com/v2/url?u=https-3A__informatics.gpcnetwork.org_trac_Project_ticket_263-23comment-3A18&d=BQMF-g&c=KNVzINr6WAqWApikNSnyDeOu0ck0iFwcrMz92MxUhIs&r=A2PXk2ZGVGBzoEOQMwrrbqse0CnDMUgS4P3-3HOTSAwE8Vfvoc1Wm0NCYFbuU-_5&m=d8q0zA6WZ5efTM__jG9uitHPetht7V8pXJ5iO309KUs&s=cRBJy9QFIbF1z2b23F4lE0euUCm3XkPpunQ7FQ_U4Q0&e=> that Sravani has done to render the inclusion/exclusion critieria in an i2b2 query constitutes a pretty thorough review, and I suppose we (KUMC) could actually use our i2b2 in place of a SAS CDM query. -- Dan ________________________________ From: Dan Connolly Sent: Wednesday, November 18, 2015 10:42 AM To: Swander, Lena C; [email protected]<mailto:[email protected]> Subject: RE: ADAPTABLE Base Phenotype Feedback (by Friday, Nov. 20) I took a quick look and didn't see any critical issues. I can't say I studied it very closely though. I hope they're leaving plenty of time for feedback after they provide code. That's when I expect to be able to do a thorough review. Has there been any investigation of R as an alternative to SAS? Is there some reason we shouldn't use an Open Source solution? -- Dan ________________________________ From: [email protected]<mailto:[email protected]> [[email protected]] on behalf of Swander, Lena C [[email protected]] Sent: Tuesday, November 17, 2015 4:01 PM To: [email protected]<mailto:[email protected]> Subject: ADAPTABLE Base Phenotype Feedback (by Friday, Nov. 20) The coordinating center is requesting feedback on the ADAPTABLE base phenotype draft (ticket #263<https://urldefense.proofpoint.com/v2/url?u=https-3A__informatics.gpcnetwork.org_trac_Project_attachment_ticket_263_2015-2D11-2D03b-2520ADAPTABLE-2520base-2520phenotype-2520-2D-2520DRAFT.pdf&d=BQMF-g&c=KNVzINr6WAqWApikNSnyDeOu0ck0iFwcrMz92MxUhIs&r=A2PXk2ZGVGBzoEOQMwrrbqse0CnDMUgS4P3-3HOTSAwE8Vfvoc1Wm0NCYFbuU-_5&m=d8q0zA6WZ5efTM__jG9uitHPetht7V8pXJ5iO309KUs&s=ewMHStjmPJIT9wIcAyMHLbs42jX25E-CZi2ZI97AGUE&e=>, and attached) by Friday, Nov. 20. This draft is primarily in narrative form. The CC will write a SAS code based on this draft and site feedback. GPC Dev leads, please provide feedback to [email protected]<mailto:[email protected]> by Nov. 20 for GPC-wide consolidation and submission. Thank you, Lena Swander Project Coordinator | Institute for Clinical and Translational Science MPH Candidate 2016 | Department of Epidemiology College of Public Health, University of Iowa Office Phone: 319-384-9936 [For reference, Dr. Russ Waitman's comments: * Adding Diagnosis and Procedure codes to the eligibility criteria * Consider NCDR registry data as a possible source system to obtain the coronary artery stenosis and ejection fraction * We've brought our NCDR PCI data into i2b2 and then things like degree of stenosis are explicit not requiring NLP * https://informatics.kumc.edu/work/browser/heron_load/ncdr_concepts_load.sql<https://urldefense.proofpoint.com/v2/url?u=https-3A__informatics.kumc.edu_work_browser_heron-5Fload_ncdr-5Fconcepts-5Fload.sql&d=BQMF-g&c=KNVzINr6WAqWApikNSnyDeOu0ck0iFwcrMz92MxUhIs&r=A2PXk2ZGVGBzoEOQMwrrbqse0CnDMUgS4P3-3HOTSAwE8Vfvoc1Wm0NCYFbuU-_5&m=d8q0zA6WZ5efTM__jG9uitHPetht7V8pXJ5iO309KUs&s=5ZHWEZm8Avzp3UctYLbckNA60Z3EC3rGS4y_p8PvngQ&e=> * https://informatics.kumc.edu/work/browser/heron_load/ncdr_constants.sql<https://urldefense.proofpoint.com/v2/url?u=https-3A__informatics.kumc.edu_work_browser_heron-5Fload_ncdr-5Fconstants.sql&d=BQMF-g&c=KNVzINr6WAqWApikNSnyDeOu0ck0iFwcrMz92MxUhIs&r=A2PXk2ZGVGBzoEOQMwrrbqse0CnDMUgS4P3-3HOTSAwE8Vfvoc1Wm0NCYFbuU-_5&m=d8q0zA6WZ5efTM__jG9uitHPetht7V8pXJ5iO309KUs&s=f8oIsceAbVyAQKBosApzCVKoJN9ikWpOZtdpv5dqhRU&e=> * https://informatics.kumc.edu/work/browser/heron_load/ncdr_facts_load.sql<https://urldefense.proofpoint.com/v2/url?u=https-3A__informatics.kumc.edu_work_browser_heron-5Fload_ncdr-5Ffacts-5Fload.sql&d=BQMF-g&c=KNVzINr6WAqWApikNSnyDeOu0ck0iFwcrMz92MxUhIs&r=A2PXk2ZGVGBzoEOQMwrrbqse0CnDMUgS4P3-3HOTSAwE8Vfvoc1Wm0NCYFbuU-_5&m=d8q0zA6WZ5efTM__jG9uitHPetht7V8pXJ5iO309KUs&s=M_-xhE-eK4H4m3WnPjfnXSv_NRwlxoYza9mZx1UQqKs&e=> * When will we get a CDM query? Right now we are all reinventing the wheel * That really would have the specificity to known versus the text doc that references categories which I don't think are instantiated in the model. For example I don't think about AHRQ-CCS Diagnosis Category 100, but we can talk ICD9, ICD10, SNOMED] ______________________________________________________________________ The contents of this message may contain private, protected and/or privileged information. If you received this message in error, you should destroy the e-mail message and any attachments or copies, and you are prohibited from retaining, distributing, disclosing or using any information contained within. Please contact the sender and advise of the erroneous delivery by return e-mail or telephone. Thank you for your cooperation.
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