HCLS/ClinicalObservationsInteroperability

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COI Task Force

tasks

  • FDA Therapeutic Area Ontologies current - documenting ericP and Charlie Mead's work on creating submission ontologies for FDA clinical trials.
  • terminfo current - define equivalences and normal forms for clinical data expressible in either the information model (e.g. HL7/RIM) and terminology model (e.g. SNOMED-CT)
  • Terminology Expressivity current - what are the different ways terminologies are defined/described?
  • HL7/RIM current - OWL representation of the RIM's MIF.
  • FHIR current - RDF representation of FHIR resoruces, OWL representation of FHIR Schema.
  • Terminology Mapping Exchange current - system for sharing mappings between terminologies.
  • CDISC current - leverage Roche's investment in RDF representations of CDISC standards.
  • EMR + Clinical Trials completed 2010 - express clinical trial protocols as SPARQL queries and execute them on clinical RDBs.

Recent Meetings

date topics
2014-06-10

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2014-05-20

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2014-05-13

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2014-04-29

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2014-04-22

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2014-04-15

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2014-04-08

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2014-04-01

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2014-03-25

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2014-03-18

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2014-02-18

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2014-02-11

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2014-01-28

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2014-01-14

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2013-12-17

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2013-11-26

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2013-11-12

Disease Ontology and FDA Therapeutic Areas in OWL(?)
ontology development strategies

2013-11-12

Disease Ontology and FDA Therapeutic Areas in OWL(?)
FHIR-RDF update(?)

2013-11-05

scant notes from a FHIR-RDF hack/design session(?)

2013-10-29

FHIR(?)
TermMap(?)

2013-10-15

FDA Therapeutic Areas in OWL
FHIR(?)

2013-10-09

FHIR(?) - development in HL7
FHIR extensibility

2013-10-02

FHIR(?)
TermMap(?)

2013-08-07

FHIR(?)
TermMap(?)

2013-07-18

TermMap(?)

2013-07-12

TermMap(?)
information model mappings

Use Cases

Patient Recruitment

  • EMR + Clinical Trials - A researcher inteface presented inputs for age, sex, medication/dosage inclusion and exclusion critera. The medications were expanded to include all drugs in their class. The interface produced a SPARQL query in a clinical research ontology. It was transformed to a query in a clinical care ontology, which was then transformed to a SQL query for a speclfic clinical care SQL schema.

Related Work

The proliferation of standards and research efforts reduces the efficiency with which we can meet practical use cases. Part of the mission here is to collaborate when possible, reducing later convergence costs.

Send mail to eric+COI@w3.org with suggestions, or join HCLS to edit directly.

Standards Bodies

Many standards break down into two categories; those that capture clinical events and the relationships between them, and those that precisely identify the medical or scientific basis for those events. For instance, CDA expreses a network of Observations with opaque codes which are taken from e.g. SNOMED, LOINC, etc.

Informational

(Health Level 7)
International standards for clinical data exchange.
  1. Message formats based on the Reference Information Model:
    CDA
    Clinical Document Architecture - XML expressions of Observations, Acts, relationships, etc.
    CCD
    Continuity of Care Document - profile of CCD intended to track an individual's medical encounters.
    CCDA
    Consolidated CDA - profile of CDA used in the Affordable Care Act's requirements for Meaningful Use.
    FHIR
    Fast Healthcare Interoperability Resources - a lighter-weight SOA and Web-compatible representation.

related: (TermInfo)
Clinical Information Modeling Initiative
Modeling clinical data in terms of openEHR archetypes.


Terminological

  • SNOMED - (from IHTSDO) was pathology-related terms, but has grown enormously. SNOMED has an OWL Ontology capturing it's intricate hierarchy.
  • LOINC - laboratory terms
  • IDC9/10 - ontology of diseases, and procedures from the World Health Organization
  • CPT - Current Procedural Terminology
  • RxNorm - pharmaceutical drugs and delivery
  • MedDRA - clinical trials (2005 tutorial)

European Initiatives

(IMI) Innovative Medicines Initiative
pre-competetive public/private parnership between EU and pharma (via EFPIA) running 2007-2017. Two foci:
  1. Efficacy Evaluation (for lung, prostate, ovarian, breast and colon cancers)
    PREDECT
    models for cancer treatments.
    ONCOTRACK
    biomarkers and response to cancer treatments.
    QUIC-CONCEPT
    biomarkers for cancer treatments.
    RAPP-ID
    point-of-care microbe detection, working with Q-Linea.
    SAFE-T
    kidney, liver and vascular drug safety/covigilance, working with EMA and FDA.
    BTCure
    cures for and intervention against rheumatoid arthritis.
  2. Knowledge Management for pharma research
    EHR4CR
    integration of EHRs for clincal research, use cases: e.g. patient recruitment, adverse event detection
    contact: Pierre-Yves Lastic, Sanofi
    DDMoRe
    modeling and simulation standards.
    OPEN-PHACTS
    SemWeb-based open-access drug discovery platform.
    contact: Egon Willighagen
    SALUS
    Standard-based interoperability framework for safety studies and analyzing real-time patient data.
    contact: Gokce Banu Laleci Erturkmen

related: (Pierre's overview)
HealthGrid
Grid for biomedical
p-medicine
VPH, personalized medicine (FP7-ICT-IP-270089, 2011-2015)
contact: Stenzhorn, Holger, Benjamin Jefferys
twobias
Bio-threat surveillance
DISCIPULUS
ICT requirements for Digital VPH Patient
(FP7/2007-2013)
EUROCAT
registries for logging births and congenital birth defects. Indexes about 1/4 of European births.
Granatum - think tank for biomedical progress
(EU funded project GRANATUM Biomedical Semantic Model)
SemanticHeathNet (who)
IT Future of Medicine (ITFoM) (integration blurb)

US Initiatives

Indivo
PCHRs in XML, working with Dossia
Dossia
PHR for employees
CTS2
clinical terminology standards
I2B2

HITECH Act

funding sources: