cdisc presentation

Caregraf

CDISC 2009

www.caregraf.org

Health-Care, meet the Semantic Web

Caregraf - .org

•“Promotes the deployment of the Semantic Web in Health-Care”

•Incubate ideas, openly

•Not Green Field - “now focus”

: Just Another Format?

•Technology: Web Stack++

• Reuse: HTTP, URIs

• + Form (RDF) Schema (OWL) Query (SPARQL)

•Link documents -> Link data

•Same ol’ Power: Link ANYWHERE

• Begone CD-ROM: no islands

• Incremental: new adds on, reuse, open

A Linked Patient

LN 30949-2

CodingSystem Code

005 NIP

CodingSystemCode

observation observationValue

Doe

John Fitzgerald

personName

familyName

givenName

middleName

aboutPatient

type

Identifiers and Time not shown

URI: http://www.facilityx.com/cdrs/112123449

Now Just Ask ...

All Patients with adverse outcome from vaccine ...

SELECT DISTINCT ?givenName ?familyName WHERE { ?patient cg:personName [ cg:givenName ?givenName ; cg:familyName ?familyName ] . [ cg:about ?patient ; ?assert [ cg:nameOfCodingSystem "LN" ; cg:simpleIdentifier "30949-2" ] ] }

Move out and up

•Question: Patients taking “Weight Loss Drugs”

•Patient Web: very particular

• Patient drugs as NDC codes: DESOXYN TABLETS (00074337701) ...

•Too big a gap?

Enter the Ontologies!

Name

RxNorm:6816

Methamphetamine

Methamphetamine

StanDrug: C0025611

Name

ObeseMay Treat

NDC: 00074337701

Desoxyn 5MG Tablet

Name

SameAs

Ingredient

Patient Joe

Medication

NDC: 00074337701

SameAs

RxNorm

Stanford Drug Ontology

Hoot72 Patient Graph

* Dotted: composite of links to save space

** w3c HCLS Example

The Ontologies?• “an implementable model of the entities that

need to be understood in common in order for some group of software systems and their users to function and communicate at the level required for a set of tasks” -- Alan Rector

• Concepts Related: hierarchies, equivalence ...

• The “middleware” of the Semantic Web

• Interoperability: concept not format focus

• OWL (WOL) - Web Ontology Language

• Growing every day: in Colleges, Corporations, ...

Ontologies are Standing by

URIs for CDISC Terms?

Not just “Standards”

LN 13317-3

CodingSystem Code

Local 182253

CodingSystem

Code

MRSA Culture

Text

Local Code LOINC Code

SameAs

•Enable standard, off-the-shelf queries

•Definition is incremental

CDISC piles in?•Roadmap: “The separation of

content standards from the means of transporting that content”

•Terms: to OWL and Endpoints

•“BRIDGing” in OWL

•Trials as querable Graphs

But ... “Patient Gap”

•“Trapped”, “Silo’ed”

•Ontologies Left Waiting

•EMRs Hold Back

Reality: from Vets

•Concrete EMR - VistA

• VA: Largest U.S. Care Provider

• 128 VistAs, federated, 14+ Million in MPI - ICNs

• Available under FOIA

•Not VistA Special: Applies to others

Every EMR, an EndPoint

•Put onto the Web ...

•Lucky: MUMPS repositories

• Network-Format ala Semantic Web

• VistA’s FileMan (no scale to test)

•Now to SPARQL ...

FMQL: SPARQL-like

•Specification in progress

•Initial goal: limited Patient, meta data dumps

SELECT ?name ?diagnosis ?age ?history FILE "PATIENT" WHERE {?r "NAME" ?name ; "DIAGNOSIS" ?d . ?d "DIAGNOSIS" ?diagnosis ; "AGE AT ONSET" ?age ; "HISTORY" ?history }

Many Users, Contributors

One Semantic Web for Health-Care

Linked Health Data

Patient

Doctor

Manager

Researcher

Insurance

Informatics

Summary

•Semantic Web growing in Health-Care

•But a “Patient Gap”

• can be bridged NOW

•CDISC can drive it forward

•More: http://www.caregraf.org