[About VPIN]

Links

OWL Consistency Checker using Pellet

Jena - a Semantic Web Framework for Java

BioMOBY and MOBY Services

Open Biomedical Ontologies

Wikipedia on Semantic Web

SSWAP Protocol Documentation

Example Ontologies for the SSWAP Platform

NOTE: Semantic MOBY is now referred to as SSWAP.

Protege links

• Protege Ontology Editor and Knowledge Acquisition System
• "Editing Description Logic Ontologies with the Protégé OWL Plugin"
• "A Practical Guide to Building OWL Ontologies Using the Protégé-OWL plugin and CO-ODE Tools"
• "Pushing the limits of OWL, Rules and Protégé: A simple example"

Some W3C links

• Resource Description Framework
• Semantic Web News
• Web Ontology Language (OWL)
• W3C Semantic Web Health Care and Life Sciences Interest Group
• RDF Tutorial

Documents

Requirements Documents

Reasoning Use Cases

S-MOBY Requirements

MOBY Use Cases (Preamble and Template)

Use Cases

Design Documents

Semantic Keyword Search design doc

Discovery Server reasoning design doc

OBO to OWL design doc

S-MOBY Design Overview

S-MOBY Design

Other Documents

Technical Assessments

NCGR Coding Standards

VPIN NSF Proposal

Articles

From XML to RDF: how semantic web technologies will change the design of 'omic' standards

Ontology 101

Publications

P. Lord, S. Bechhofer, M. D. Wilkinson, G. Schiltz, D. Gessler, et al., Applying semantic web services to bioinformatics: Experiences gained, lessons learnt. International Semantic Web Conference (2004) 350-364.

G. Schiltz, D. Gessler, L. Stein Semantic MOBY. Position Paper for the W3C Workshop on Semantic Web for Life Sciences, W3C, 2004.

M. D. Wilkinson and M. Links, BioMOBY: an open-source biological web services proposal. Briefings In Bioinformatics 3 (2002) 331 - 341.

M. D. Wilkinson, D. Gessler, A. Farmer, L Stein, The BioMOBY project explores open-source, simple, extensible protocols for enabling biological database interoperability. Proc. Virt. Conf. Genom. and Bioinf. 3(2003) 16-26. (ISSN 1547-383X).