7th International Semantic Web Conference (ISWC), Karlsruhe 2008

Semantic Web for Health Care and Life Sciences

author: Holger Stenzhorn, University of Freiburg
author: Tim Clark, Harvard University
author: Alexandre Passant, DERI Galway, National University of Ireland, Galway
author: Christian Bizer, Free University
author: Phil Brooks, Eli Lilly
author: Chimezie Ogbuji, Cleveland Clinic
author: Eric Prud’hommeaux, Department of Mathematical Sciences, University of Bath
published: Nov. 24, 2008, recorded: October 2008, views: 623

Slides

Slides
0:00	Semantic Web for Health Care and Life Sciences Tutorial
0:09	- Introductions
8:09	Agenda
9:37	Introduction to the W3C for Semantic Web and Life Sciences Interest Group
9:44	What is the Mission of HCLS IG?
10:16	What does the group do?
12:12	Who’s Involved?
15:15	Task Forces
18:12	HCLS IG Documents
18:48	HCLS Web Site
19:15	HCLS Wiki
19:38	Getting Involved
21:16	- HCLS IG Documents - Questions
22:21	Data Needs of Health Care and Life Sciences
25:02	The HCLS data crisis
27:04	SW vision for HCLS
28:17	HCLS domain topology
30:14	Information-based medicine
32:17	A working example
33:48	Representing CABG
35:26	Candidate ontologies
37:46	Key concepts
38:43	Anatomy (1)
39:49	Anatomy (2)
41:57	Procedure methods
43:01	- Anatomy - Questions
44:24	Procedure methods
45:52	Grafting in an ontology
47:04	Adding CABG class
48:20	Modeling “co-morbidities”
49:56	Modeling morbidities
53:17	How can this be used (1)
55:23	How can this be used (2)
55:38	Modeling morbidities
56:44	How can this be used (2)
66:20	Use of Semantic Technologies at Eli Lilly and Company
66:46	Agenda
67:11	Project Overview: Discovery Metadata
67:14	Discovery Metadata: Goals
70:11	Discovery Metadata: Ontology
71:11	Discovery Metadata: Architecture
73:01	Discovery Metadata: Implementation
75:39	Discovery Metadata: Future Work
78:24	Project Overview: Integrative Informatics
79:55	Integrative Informatics: Overview
80:54	Integrative Informatics: POC1 - CATIE Semantic Integration
81:21	Integrative Informatics: POC1 Goals
81:50	Integrative Informatics: POC1 Conclusions
82:30	Integrative Informatics: POC4 - Endocrine PI Competitive Intelligence
84:01	Integrative Informatics: POC4 Goals
84:50	Integrative Informatics: POC4 Integration Challenges
85:54	Integrative Informatics: POC4 NLP and Semantic Integration
86:25	Integrative Informatics: POC4 Knowledge Representation
86:59	Integrative Informatics: POC4 Inferencing
87:22	Integrative Informatics: POC4 Conclusions
90:52	Project Overview: Metadata Repository
91:07	Metadata Repository: Goals
91:33	Metadata Repository: Ontology
91:50	Metadata Repository: High-level Architecture
91:54	Metadata Repository: Implementation
92:00	Metadata Repository: Conclusion
92:20	Metadata Repository: Future Work
92:27	External Collaborations
92:34	The Open Innovation Center
93:36	External Collaborations
94:57	Conclusions
95:00	Conclusions
97:09	Acknowledgements

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Description

The W3C Semantic Web in Health Care and Life Sciences Interest Group (HCLSIG) has used RDF tools to integrate several large biological and clinical databases. This has simplified access to relational and hierarchical data and enabled third party additions to the database. HCLSIG demonstrates the use of Semantic Web technologies to access data on a web scale, taking advantage of OWL and rules to allow queries to re-purpose data without the need to coordinate with the data custodian.

This tutorial will introduce OWL and rule mappings of databases, as well as introduce good practices for data modeling and publication. The use of SKOS for terminologies will also be described. Attendees will learn possible applications of Semantic Web tools to share data between and within organizations and solve large scale data integration problems.

This tutorial will discuss how publishers of biological and clinical data can use OWL and rules to model their data and how users of Semantic Web tools can access this more diverse data. Attendees should be familiar with the Semantic Web languages RDF, Turtle, SPARQL and be introduced to OWL. These materials will be covered in the earlier RSWA tutorial.