Datasets › Dataset: Relationship extraction for knowledge graph creation from biomedical literature (Gene-Disease relationships)
Dataset: Relationship extraction for knowledge graph creation from biomedical literature (Gene-Disease relationships)
This is the dataset used for classifying Gene-Disease relationship types from sentences. The dataset consists of 3 files:
- manually_annotated_set.xlsx - set of 2000 manualy annotated sentences with entities
- Unbalanced_dataset.xlsx - set of 12000 sentences, out of which 2000 are from the first set, manually annotated, and the rest have been added using rule based method by adding sentences where extraction had confidence 1.
- Balanced_dataset_SUB_PRED.xlsx - balanced dataset generated by taking 2000 manually annotated sentences, but then adding sentences from the rule-based method with confidence 1 in such a way that each relationship class had at least 1400 sentences (for biomarkers, we could obtain 1243 sentences with confidence 1 from a processed portion of the data we had at the time of building the dataset).
Benchmarks archive 2025-07-28
All 1 leaderboard whose dataset resolves to this page shown (sort by any header). "First row" is the archive's own first row at snapshot, in the archive's row order; nothing here re-ranks and metric direction is not asserted.
| First row (archive order) | Paper | Code | ||||
|---|---|---|---|---|---|---|
| Relation Extraction | Dataset: Relationship extraction for knowledge graph creation from biomedical literature (Gene-Disease relationships) | DistilBERT F1 91 | Comparison of biomedical relationship extraction methods... | — | 2 | Compare |
Papers archive 2025-07-28
1 shown of 1 paper with a leaderboard row on this dataset's benchmarks, newest first. The archive's own "papers using this dataset" list was never published, so this is the benchmark-backed subset; the archive's count for this dataset is 1. The Syntology column is from Syntology's graph (read 2026-09-24), stated per sample; it is not part of any archive number.
| Date | Samples run Syntology | |||
|---|---|---|---|---|
| Comparison of biomedical relationship extraction methods and models for knowledge graph creation | 0 | 2 | 5 Jan 2022 | not harvested |
Dataset loaders archive 2025-07-28
No loader listed in the archive.
Tasks archive 2025-07-28
License archive 2025-07-28
restricted - approved access by authors
Modalities archive 2025-07-28
Languages archive 2025-07-28
Variants archive 2025-07-28
- Dataset: Relationship extraction for knowledge graph creation from biomedical literature (Gene-Disease relationships)
1 variant name, as the archive lists them.
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