Datasets:
Tasks:
Token Classification
Sub-tasks:
named-entity-recognition
Languages:
English
Multilinguality:
monolingual
Size Categories:
10K<n<100K
Tags:
License:
| language: | |
| - en | |
| license: | |
| - other | |
| multilinguality: | |
| - monolingual | |
| size_categories: | |
| - 10K<n<100K | |
| task_categories: | |
| - token-classification | |
| task_ids: | |
| - named-entity-recognition | |
| pretty_name: BioNLP2004 | |
| # Dataset Card for "tner/bionlp2004" | |
| ## Dataset Description | |
| - **Repository:** [T-NER](https://github.com/asahi417/tner) | |
| - **Paper:** [https://aclanthology.org/U15-1010.pdf](https://aclanthology.org/U15-1010.pdf) | |
| - **Dataset:** BioNLP2004 | |
| - **Domain:** Biochemical | |
| - **Number of Entity:** 5 | |
| ### Dataset Summary | |
| BioNLP2004 NER dataset formatted in a part of [TNER](https://github.com/asahi417/tner) project. | |
| BioNLP2004 dataset contains training and test only, so we randomly sample a half size of test instances from the training set to create validation set. | |
| - Entity Types: `DNA`, `protein`, `cell_type`, `cell_line`, `RNA` | |
| ## Dataset Structure | |
| ### Data Instances | |
| An example of `train` looks as follows. | |
| ``` | |
| { | |
| 'tags': [0, 0, 0, 0, 3, 0, 9, 10, 0, 0, 0, 0, 0, 7, 8, 0, 3, 0, 0, 9, 10, 10, 0, 0], | |
| 'tokens': ['In', 'the', 'presence', 'of', 'Epo', ',', 'c-myb', 'mRNA', 'declined', 'and', '20', '%', 'of', 'K562', 'cells', 'synthesized', 'Hb', 'regardless', 'of', 'antisense', 'myb', 'RNA', 'expression', '.'] | |
| } | |
| ``` | |
| ### Label ID | |
| The label2id dictionary can be found at [here](https://huggingface.co/datasets/tner/fin/raw/main/dataset/label.json). | |
| ```python | |
| { | |
| "O": 0, | |
| "B-DNA": 1, | |
| "I-DNA": 2, | |
| "B-protein": 3, | |
| "I-protein": 4, | |
| "B-cell_type": 5, | |
| "I-cell_type": 6, | |
| "B-cell_line": 7, | |
| "I-cell_line": 8, | |
| "B-RNA": 9, | |
| "I-RNA": 10 | |
| } | |
| ``` | |
| ### Data Splits | |
| | name |train|validation|test| | |
| |---------|----:|---------:|---:| | |
| |bionlp2004 |16619 | 1927| 3856| | |
| ### Citation Information | |
| ``` | |
| @inproceedings{collier-kim-2004-introduction, | |
| title = "Introduction to the Bio-entity Recognition Task at {JNLPBA}", | |
| author = "Collier, Nigel and | |
| Kim, Jin-Dong", | |
| booktitle = "Proceedings of the International Joint Workshop on Natural Language Processing in Biomedicine and its Applications ({NLPBA}/{B}io{NLP})", | |
| month = aug # " 28th and 29th", | |
| year = "2004", | |
| address = "Geneva, Switzerland", | |
| publisher = "COLING", | |
| url = "https://aclanthology.org/W04-1213", | |
| pages = "73--78", | |
| } | |
| ``` |