DOMEO - Document Metadata Organizer
Ciccarese P, Ocana M, Clark, T. DOMEO: a web-based tool for semantic annotation of online documents. Paper at Bio-Ontologies 2011, Vienna, Austria. Accepted
So highlight text in the web (eg. Pubmed article) and hit Annotate. Loads ontology data when annotating as well. Also lets you share annotations.
http://code.google.com/p/domeo/
http://www.slideshare.net/paolociccarese/swan-annotation-framework-text-mining
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