@inproceedings{el-khettari-etal-2023-building,
    title = "Building a Corpus for Biomedical Relation Extraction of Species Mentions",
    author = "El Khettari, Oumaima  and
      Quiniou, Solen  and
      Chaffron, Samuel",
    editor = "Demner-fushman, Dina  and
      Ananiadou, Sophia  and
      Cohen, Kevin",
    booktitle = "The 22nd Workshop on Biomedical Natural Language Processing and BioNLP Shared Tasks",
    month = jul,
    year = "2023",
    address = "Toronto, Canada",
    publisher = "Association for Computational Linguistics",
    url = "https://aclanthology.org/2023.bionlp-1.21",
    doi = "10.18653/v1/2023.bionlp-1.21",
    pages = "248--254",
    abstract = "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.",
}

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.
El Khettari, Oumaima Quiniou, Solen Chaffron, Samuel
Building a Corpus for Biomedical Relation Extraction of Species Mentions