Ph.D., Assistant Professor at Universidade de Lisboa, Researcher at LASIGE
clpesquita [at] fc.ul.pt
+351 217500846 (ext.26314)
I am an Assistant Professor at the Department of Informatics of the Faculty of Sciences of the University of Lisbon and a researcher at LASIGE. I have a PhD in Computer Science - Bioinformatics (2012), an MSc in Bioinformatics (2008) and a degree in Biology (2005).
My main research interest is how we can turn data, of which we have more and more each day, into meaningful and purposeful knowledge. My research areas include Biomedical Ontologies, Semantic Web, Ontology Matching, Semantic Similarity, Ontology Evolution, Knowledge Management and Data and Text Mining.
Cheatham M, Pesquita C. Semantic Data Integration. In Handbook of Big Data Technologies 2017 (pp. 263-305). Springer International Publishing.
Dragisic Z, Ivanova V, Lambrix P, Faria D, Jiménez-Ruiz E, Pesquita C. User validation in ontology alignment. In International Semantic Web Conference 2016 Oct 17 (pp. 200-217). Springer International Publishing.
Santos E, Faria D, Pesquita C, Couto FM. Ontology alignment repair through modularization and confidence-based heuristics. PLoS ONE. 2015;10(12).
Pesquita C, Faria D, Stroe C, Santos E, Cruz IF, Couto FM. What’s in a ‘nym’? Synonyms in Biomedical Ontology Matching. In The Semantic Web–ISWC 2013 2013 Oct 21 (pp. 526-541). Springer Berlin Heidelberg.
Pesquita C, Couto FM.Predicting the Extension of Biomedical Ontologies. PLoS Computational Biology. 2012.
Pesquita C, Faria D, Falcao AO, Lord P, Couto FM. Semantic similarity in biomedical ontologies. PLoS Comput Biol. 2009 Jul 31;5(7):e1000443.
SOMER (Semantic Ontology Matching using External Resources)
Turning Big Data into Smart Data
BOA (BioOntologies Applications)
AEB (Automated Extension of Biomedical Ontologies) completed
Epiwork (Developing the framework for an epidemic forecast infrastructure) completed
The Epidemiology Ontology, dedicated to epidemiologically relevant parameters and metrics. Available on Google Code
CESSM, an online tool for evaluation of semantic similarity measures for the Gene Ontology
Proteinon, an online tool for calculating GO-based semantic similarity.
Carlos Alexandre Lourenço (PhD)
Isabela Mott Silva (MSc)
Madalena Pavão (MSc)
João Rebelo (MSc)
Carlos Alexandre Lourenço (MSc)
Marzieh Bakshandeh (PhD)
Daniela Olveira (MSc)
My student, Daniela Oliveira, successfully defended her MSc dissertation and has been accepted for a PhD at the Insight Centre for Data Analytics, NUI Galway, Ireland
AML-EA, a flavour of AML geared for Enterprise Architechture matching developed in collaboration with INESC-ID ranked first in the Asset Management Matching task at the Process Model Matching Contest at EMISA 2015.
My student's paper won Best Early Career Paper Award at ICBO 2015. Congratulations, Catarina!
Faculdade de Ciências is hosting ICBO 2015, and I am the local organizer. Welcome to Lisbon!
Our paper The epidemiology ontology: an ontology for the semantic annotation of epidemiological resources is out on JBMS.