Papers › Enhancing Label Consistency on Document-level Named Entity Recognition
Enhancing Label Consistency on Document-level Named Entity Recognition
Minbyul Jeong, Jaewoo Kang
Named entity recognition (NER) is a fundamental part of extracting information from documents in biomedical applications. A notable advantage of NER is its consistency in extracting biomedical entities in a document context. Although existing document NER models show consistent predictions, they still do not meet our expectations. We investigated whether the adjectives and prepositions within an entity cause a low label consistency, which results in inconsistent predictions. In this paper, we present our method, ConNER, which enhances the label dependency of modifiers (e.g., adjectives and prepositions) to achieve higher label agreement. ConNER refines the draft labels of the modifiers to improve the output representations of biomedical entities. The effectiveness of our method is demonstrated on four popular biomedical NER datasets; in particular, its efficacy is proved on two datasets with 7.5-8.6% absolute improvements in the F1 score. We interpret that our ConNER method is effective on datasets that have intrinsically low label consistency. In the qualitative analysis, we demonstrate how our approach makes the NER model generate consistent predictions. Our code and resources are available at https://github.com/dmis-lab/ConNER/.
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Tasks
Results from the paper archive 2025-07-28
| Task | Dataset | Model | Metric | Value | Rank at snapshot | Leaderboard | Report |
|---|---|---|---|---|---|---|---|
| Named Entity Recognition (NER) | AnatEM | ConNER | F1 | 83.5 | #1 of 5 | Archive leaderboard | report |
| Named Entity Recognition (NER) | BC5CDR | ConNER | F1 | 91.3 | #2 of 16 | Archive leaderboard | report |
| Named Entity Recognition (NER) | Gellus | ConNER | F1 (%) | 63.4 | #1 of 1 | Archive leaderboard | report |
Ranks are positions in the archive's leaderboards as they stood at the 2025-07-28 snapshot. Results published since then are not among these rows, so a rank here is not a current standing.
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