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arXiv · 2306.08403

Building a Corpus for Biomedical Relation Extraction of Species Mentions

Oumaima El Khettari·Solen Quiniou·Samuel Chaffron
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Abstract

We present a manually annotated corpus, Species-Species Interaction, 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 Named Entity Recognition species taggers. Our first results are promising for extracting relations between species using BERT and its biomedical variants.

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Oumaima El Khettari, Solen Quiniou, Samuel Chaffron. 2023-06-14. Building a Corpus for Biomedical Relation Extraction of Species Mentions. https://arxiv.org/abs/2306.08403

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