Getting Started with VA OMOP · Getting Started with VA OMOP @DuVallScott. Poll #1: Your role as a...
Transcript of Getting Started with VA OMOP · Getting Started with VA OMOP @DuVallScott. Poll #1: Your role as a...
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Getting Started with VA OMOP
@DuVallScott
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Poll #1: Your role as a data user
What is your role in research and/or quality improvement?
• Research investigator
• Methodologist
• Data manager, analyst, or programmer
• Project coordinator
• Other – please describe via the Q&A function
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Poll #2: Your experience with CDW data
Rate your level of experience with CDW data on a scale of 1 to 5…
• 1. Not worked with it at all
• 2. Have minimal experience with it
• 3. Have work closely with it for <6 months
• 4. Have worked closely with it for 6 months to 2 years
• 5. Very experienced with CDW
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Poll #3: Your experience with OMOP data
How familiar are you with OMOP?
• 1. I currently use it
• 2. I would like to use it
• 3. I have heard of it and would like to learn more
• 4. I have not heard of it
• 5. I have my doubts
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Many thanks to many hands!
VINCI Governance Board • David Atkins, Jack Bates, James Breeling, Stephen Finn, Denise Hynes, Jonathan Nebeker, John Quinn
VINCI OMOP Team • Michael Matheny, Steve Deppen, Kristine Lynch, Jesse Brannen, Aize Cao, Jiwon Chang, Jason
Denton, Elizabeth Hanchrow, Abigail Hillard, Kevin Malohi, Daniel Park, Ben Viernes
VINCI IT Team • Augie Turano, Hamid Saoudian
Contributing Investigators • Makoto Jones, Valmeek Kudesia, Steve Luther, Brian Sauer, Andy Zimolzak
MVP Phenotyping Core • Kelly Cho, David Gagnon, Jacqueline Honerlaw
Champions and Beta Testers • Drs. Whooley, Frey, Aragam, Callaway-Lane, Cohen, Grogan, Hwang, Jeffrey, Lenert, Luther, Morano,
Mudumbai, Samore, Van Houtven, Voils, Zeng
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sourcedata
nationalterminologies
bestpractices
extracted,transformed,deriveddata
qualityassurance communityuse
andcontribution
What is VA OMOP?
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VA OMOP is available and you can request it
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How can I request VA OMOP?
Where do I go to find information about requesting VA OMOP?
• www.vapulse.net VINCI OMOP Users Group
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How can I request VA OMOP?
Where do I go to find information about requesting VA OMOP?
• www.vapulse.net VINCI OMOP Users Group
Getting_Started_with_VINCI_OMOPv5_Instructions_11152016
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How can I request VA OMOP?
What permission do I need to get VA OMOP data?
• VA OMOP is transformed CDW data. If you have approval for CDW data, you have approval for VA OMOP.
Do I need to have RealSSN approval to get VA OMOP?
• No. V! OMOP doesn’t contain names, phone numbers, social security numbers, nor scrambled social security numbers.
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How can I request VA OMOP?
Do I need to amend my IRB?
• No. VA OMOP is not a new data source. It is transformed CDW data.
Do I need to amend my DART?
• Yes. Mention “V! OMOP” in the Research Request Memo and select “OMOP Common Data Model v5 (CDW Production/Raw Source)” in the CDW Domain Checklist.
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. . . . . .
How can I request VA OMOP?
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What does VA OMOP look like?
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How can I learn how to use VA OMOP?
• Cyberseminars
• VINCI “Happy Hours”
• VA Pulse VINCI OMOP Users Group
• OMOP Users Call
• VINCI Central
• Concierge requests – [email protected]
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Stock columns
What does a VA OMOP table look like?
Primary Key
Person-centric
Standard Concept
Provider and Visit
Source Concept
Multiple source tables grouped in conceptual domains
Bread crumb back to source data Custom columns
Track changes
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How does VA OMOP represent concepts?
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Concept Concept
Concept_relationship
How does VA OMOP represent concepts?
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Concept Concept
Concept_relationship
How does VA OMOP represent concepts?
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How does VA OMOP represent concepts?
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How does VA OMOP represent concepts?
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How does VA OMOP represent concepts?
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How does VA OMOP deal with conflicts? • Test patients removed • Non-Veterans removed • PatientICN link
VIReC documented best practice guidance • Race • Ethnicity • Gender • Date of Birth • Date of Death • Preferred Care Site
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What if I have a different strategy?
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How can I use VA OMOP logic now?
• CDW dimension table to OMOP Concept table mappings
• Institution and Location to OMOP Care_site
• PatientChemLab to OMOP Concept
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How can I use VA OMOP logic now?
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How can I use VA OMOP logic now?
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What can I contribute?
• Data mappings
• Variable definitions
• Code snippets / Logic • Validation, erroneous data, transforms
• Cohort lists
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Scott DuVall
@DuVallScott