COI Task Force

tasks

Statistical proposed - aggregate clinical data
FHIR current - RDF representation of FHIR resoruces, OWL representation of FHIR Schema.
HL7 RIM
- HL7/RIM current - OWL representation of the RIM's MIF.
- C-CDA current - express CDA as RDF
Terminology
- ontology list current
- 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 (representing value sets) current - what are the different ways terminologies are defined/described?
- 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.
completed 2014 - FDA Therapeutic Area Ontologies current - documenting ericP and Charlie Mead's work on creating submission ontologies for FDA clinical trials.

Recent Meetings

date	topics
2014-06-10	item1 item2
2014-05-20	item1 item2
2014-05-13	item1 item2
2014-04-29	item1 item2
2014-04-22	item1 item2
2014-04-15	item1 item2
2014-04-08	item1 item2
2014-04-01	item1 item2
2014-03-25	item1 item2
2014-03-18	item1 item2
2014-02-18	item1 item2
2014-02-11	item1 item2
2014-01-28	item1 item2
2014-01-14	item1 item2
2013-12-17	item1 item2
2013-11-26	item1 item2
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.

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:

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.
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

URI formats - SNOMED, ICD, UMLS, HL7

I2B2 mission projects SHRINE federated aggregate queries modeling inclusion and exclusion criteria GARLIC NGS variant analysis CRIMSON Bio-banking Health Ontology Mapper materialize integrations of multiple DBs. SMART substitutable medical apps.

HITECH Act funding sources: Wellcome^trust