Oumaima El Khettari
2023
Building a Corpus for Biomedical Relation Extraction of Species Mentions
Oumaima El Khettari
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Solen Quiniou
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Samuel Chaffron
The 22nd Workshop on Biomedical Natural Language Processing and BioNLP Shared Tasks
We present a manually annotated new corpus, Species-Species Interaction (SSI), for extracting meaningful binary relations between species, in biomedical texts, at sentence level, with a focus on the gut microbiota. The corpus leverages PubTator to annotate species in full-text articles after evaluating different NER species taggers. Our first results are promising for extracting relations between species using BERT and its biomedical variants.
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