Dependency parsing for interaction detection in pharmacogenomics

Gerold Schneider, Fabio Rinaldi, Simon Clematide


Abstract
We give an overview of our approach to the extraction of interactions between pharmacogenomic entities like drugs, genes and diseases and suggest classes of interaction types driven by data from PharmGKB and partly following the top level ontology WordNet and biomedical types from BioNLP. Our text mining approach to the extraction of interactions is based on syntactic analysis. We use syntactic analyses to explore domain events and to suggest a set of interaction labels for the pharmacogenomics domain.
Anthology ID:
L12-1626
Volume:
Proceedings of the Eighth International Conference on Language Resources and Evaluation (LREC'12)
Month:
May
Year:
2012
Address:
Istanbul, Turkey
Venue:
LREC
SIG:
Publisher:
European Language Resources Association (ELRA)
Note:
Pages:
2075–2082
Language:
URL:
http://www.lrec-conf.org/proceedings/lrec2012/pdf/1052_Paper.pdf
DOI:
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PDF:
http://www.lrec-conf.org/proceedings/lrec2012/pdf/1052_Paper.pdf