I am a Research Associate / Associate Director of Knowledge Representation at the Center for Computational Biomedicine (CCB), Harvard Medical School.
Before moving to Boston I was a Research Scientist at the Stanford Center for Biomedical Informatics Research, in the Protégé group.
My interests revolve around applications of knowledge representation and reasoning, natural language processing and semantic web techniques to improve discovery, integration and analysis of heterogeneous, evolving datasets originating from multiple sources.
At the Stanford Center for Biomedical Informatics Research I was involved in the Protégé and CEDAR projects. I steered the research activities of the Protégé group, and coordinated and led projects to build enterprise knowledge graphs with industrial collaborators. I helped organizing and teaching the Protégé Short Course on building, reasoning, and querying ontologies with Protégé and WebProtégé.
I worked in the Protégé and the Center for Expanded Data Annotation and Retrieval (CEDAR) projects, led by Mark Musen. My role involved developing tools for building and populating ontologies from spreadsheet and form data, and Protégé extensions to enable collaboratively building ontologies using Protégé Desktop v5+. These extensions were designed and used for the development of the National Cancer Institute Thesaurus.
I worked on an N8 Consortium project to build an intelligent system for browsing and discovering scientific equipment. This project involved the development of an OWL ontology to describe scientific equipment available within institutions of the N8 Consortium, and a prototype Web application for faceted-browsing of equipment based on the ontology. This project was supervised by Robert Stevens.
I was a Teaching Assistant on the following courses:
In my thesis 'Impact Analysis in Description Logic Ontologies' I investigated methods to detect and present changes between ontologies represented in OWL. First I defined an ontology diff method that detects changes both to asserted and inferred axioms, and changes to the meaning of terms. Then I investigated how axiom changes affect reasoning performance, and defined a new method to isolate small ontology subsets whose interaction with the remainder is highly performance-degrading—so called hot spots. My supervisors were Uli Sattler and Bijan Parsia.
In my Masters dissertation, I investigated the feasibility of collaboratively developing OWL ontologies using semantic wikis. I evaluated semantic wikis equipped with reasoning and SPARQL querying capabilities. My supervisors were Alan Rector and Robert Stevens.
Completed with 1st class Honors and an award for Best Achievement in the Field of Computational Biology. My final-year project involved web and database development, and was supervised by Frans Coenen.
See also: DBLP, Google Scholar, Semantic Scholar.
I frequently review papers for multiple conferences and workshops:
I am a member of the editorial board for the Semantic Web Journal. I also review for the following journals:
Born and raised in a small town in the south coast of Portugal, I spent much of my free time sailing. These days I rather enjoy being underwater instead, and scuba diving has become my main hobby. I dived a bit all over the world: Red Sea, Great Barrier Reef, Caribbean Sea, cenotes in Mexico, Blue Hole in Belize,... More recently I have been learning to ski.