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Joint Entity and Relation Extraction from Scientific Documents: Role of Linguistic Information and Entity Types
T Y S S Santosh, Prantika Chakraborty, Sudakshina Dutta, Debarshi Kumar Sanyal, Partha Pratim Das
Scientific articles contain various types of domain-specific entities and relations between them. The entities and their relations succinctly capture important information about the topic of the document and hence, they are crucial to the understanding and automatic analysis of the documents. In this paper, we aim to automatically extract entities and relations from a scientific abstract using a deep neural model. Given an input sentence, we use a pretrained transformer to produce contextual embeddings of the tokens which are then enriched with embeddings of their part-of-speech (POS) tags. A sequence of enriched token representations forms a span, and entities and relations are jointly learned over spans. Entity logits predicted by the entity classifier are used as features in the relation classifier. Our proposed model improves upon competitive baselines in the literature for entity and relation extraction on SciERC and ADE datasets.
Code
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Tasks
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Results from the paper archive 2025-07-28
| Task | Dataset | Model | Metric | Value | Rank at snapshot | Leaderboard | Report |
|---|---|---|---|---|---|---|---|
| Joint Entity and Relation Extraction | SciERC | SpERT.PL (SciBERT) | Cross Sentence | No | #3 of 11 | Archive leaderboard | report |
| Joint Entity and Relation Extraction | SciERC | SpERT.PL (SciBERT) | Entity F1 | 70.53 | #3 of 11 | Archive leaderboard | report |
| Joint Entity and Relation Extraction | SciERC | SpERT.PL (SciBERT) | Relation F1 | 51.25 | #3 of 11 | Archive leaderboard | report |
| Relation Extraction | Adverse Drug Events (ADE) Corpus | SpERT.PL (without overlap and BioBERT) | NER Macro F1 | 91.14 | #5 of 15 | Archive leaderboard | report |
| Relation Extraction | Adverse Drug Events (ADE) Corpus | SpERT.PL (without overlap and BioBERT) | RE+ Macro F1 | 82.39 | #5 of 15 | Archive leaderboard | report |
| Relation Extraction | Adverse Drug Events (ADE) Corpus | SpERT.PL (with overlap and BioBERT) | NER Macro F1 | 91.17 | #7 of 15 | Archive leaderboard | report |
| Relation Extraction | Adverse Drug Events (ADE) Corpus | SpERT.PL (with overlap and BioBERT) | RE+ Macro F1 | 82.03 | #7 of 15 | 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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