© Copyright 2008, Mayo Clinic College of Medicine

Mayo ClinicOpen Health Tools

Application for Membership

OHT Board Meeting, Birmingham, UK

July 1, 2008

© Copyright 2008, Mayo Clinic College of Medicine

About Mayo Clinic

• Mayo Clinic is the first and largest integrated, not-for-profit group practice in the world.

• Employing more than 3,300 physicians, scientists and researchers and 46,000 allied health staff.

• Sites in Rochester, Minn., Jacksonville, Fla., and Scottsdale/Phoenix, Ariz.

• Collectively, the three locations treat more than half a million people each year.

• Mission: To provide the best care to every patient every day through integrated clinical practice, education, and research.

© Copyright 2008, Mayo Clinic College of Medicine

Possible Contributions

LexGrid Vocabulary Services

Other

OBO

Content

Export

ImportOWL

XML

OBO

Text

Protégé

RRF

XML

Representation

LexGridVocabulary

Model

DataRepository

Tools And Services

Access

Prog

ramm

ing Interfaces

APIs

LexBIG

…

CTS

App

sJava

Embed

WebServices

DistributedLexBIG

API

App

licatio

nS

erver

File System:Metadata &

Indexes

Grid Services

NCI/NCBO Services

LexGridModel & Storage

Applications LexBIG API

• Publish and query vocabularies via common tools, storage formats, and access/update mechanisms.

• Initial focus on the 'LexBIG' software project, managed as a common open source code base in support of NCI Enterprise Vocabulary Services (EVS) and the National Center of Biomedical Ontology (NCBO) BioPortal. 

© Copyright 2008, Mayo Clinic College of Medicine

Possible Contributions

LexWIKI Collaborative Authoring Tools• Code in support of an open source

distributed platform for collaborative terminology authoring based on Semantic MediaWiki technology.

• Potential submissions will be based on software developed in support of World Health Organization (WHO) authoring of ICD11 and NCI Biomedical Grid Terminology (BiomedGT) content development. 

Wiki Core

Semantic Forms

MySQLLexBIG

Export/Load

Domain Experts

Protégé

Authoring

Change setsDetection

Templates

LexWIKI Editor

LexWiki Tab

Semantic Wiki

© Copyright 2008, Mayo Clinic College of Medicine

Possible Contributions

Natural Language Processing

• Potential submissions will include open source distribution of natural language parsing algorithms and text annotators.

• Prior open source efforts in this area have been implemented as plug-ins to IBM's open source Unstructured Information Management Architecture (UIMA) framework.

© Copyright 2008, Mayo Clinic College of Medicine

Thank You!

Contacts:

• Thomas Johnson, Biomedical Informatics, johnson.thomas@mayo.edu

• Tammy Goemaat, Public Affairs, goemaat.tamara@mayo.edu

References:

• LexBIG - https://gforge.nci.nih.gov/plugins/scmcvs/cvsweb.php/~checkout~/admin/presentations/20070123_NLM.pdf?rev=1.1;content-type=application%2Foctet-stream;cvsroot=lexbig

• LexWIKI - http://ncvhs.hhs.gov/080221p1.pdf

• Natural Language Processing - http://www.jamia.org/cgi/reprint/M2437v1.pdf