README.md

---
language:
- en
bigbio_language:
- English
license: other
multilinguality: monolingual
bigbio_license_shortname: PUBLIC_DOMAIN_MARK_1p0
pretty_name: ChemProt
homepage: https://biocreative.bioinformatics.udel.edu/tasks/biocreative-vi/track-5/
bigbio_pubmed: true
bigbio_public: true
bigbio_tasks:
- RELATION_EXTRACTION
- NAMED_ENTITY_RECOGNITION
dataset_info:
- config_name: chemprot_bigbio_kb
  features:
  - name: id
    dtype: string
  - name: document_id
    dtype: string
  - name: passages
    list:
    - name: id
      dtype: string
    - name: type
      dtype: string
    - name: text
      sequence: string
    - name: offsets
      sequence:
        list: int32
  - name: entities
    list:
    - name: id
      dtype: string
    - name: type
      dtype: string
    - name: text
      sequence: string
    - name: offsets
      sequence:
        list: int32
    - name: normalized
      list:
      - name: db_name
        dtype: string
      - name: db_id
        dtype: string
  - name: events
    list:
    - name: id
      dtype: string
    - name: type
      dtype: string
    - name: trigger
      struct:
      - name: text
        sequence: string
      - name: offsets
        sequence:
          list: int32
    - name: arguments
      list:
      - name: role
        dtype: string
      - name: ref_id
        dtype: string
  - name: coreferences
    list:
    - name: id
      dtype: string
    - name: entity_ids
      sequence: string
  - name: relations
    list:
    - name: id
      dtype: string
    - name: type
      dtype: string
    - name: arg1_id
      dtype: string
    - name: arg2_id
      dtype: string
    - name: normalized
      list:
      - name: db_name
        dtype: string
      - name: db_id
        dtype: string
  splits:
  - name: sample
    num_bytes: 174378
    num_examples: 50
  - name: train
    num_bytes: 3509825
    num_examples: 1020
  - name: test
    num_bytes: 2838045
    num_examples: 800
  - name: validation
    num_bytes: 2098255
    num_examples: 612
  download_size: 3644874
  dataset_size: 8620503
- config_name: chemprot_full_source
  features:
  - name: pmid
    dtype: string
  - name: text
    dtype: string
  - name: entities
    sequence:
    - name: id
      dtype: string
    - name: type
      dtype: string
    - name: text
      dtype: string
    - name: offsets
      sequence: int64
  - name: relations
    sequence:
    - name: type
      dtype: string
    - name: arg1
      dtype: string
    - name: arg2
      dtype: string
  splits:
  - name: sample
    num_bytes: 159878
    num_examples: 50
  - name: train
    num_bytes: 3161241
    num_examples: 1020
  - name: test
    num_bytes: 2550891
    num_examples: 800
  - name: validation
    num_bytes: 1902042
    num_examples: 612
  download_size: 2938603
  dataset_size: 7774052
- config_name: chemprot_shared_task_eval_source
  features:
  - name: pmid
    dtype: string
  - name: text
    dtype: string
  - name: entities
    sequence:
    - name: id
      dtype: string
    - name: type
      dtype: string
    - name: text
      dtype: string
    - name: offsets
      sequence: int64
  - name: relations
    sequence:
    - name: type
      dtype: string
    - name: arg1
      dtype: string
    - name: arg2
      dtype: string
  splits:
  - name: sample
    num_bytes: 157609
    num_examples: 50
  - name: train
    num_bytes: 3109953
    num_examples: 1020
  - name: test
    num_bytes: 2499388
    num_examples: 800
  - name: validation
    num_bytes: 1876378
    num_examples: 612
  download_size: 2924370
  dataset_size: 7643328
configs:
- config_name: chemprot_bigbio_kb
  data_files:
  - split: sample
    path: chemprot_bigbio_kb/sample-*
  - split: train
    path: chemprot_bigbio_kb/train-*
  - split: test
    path: chemprot_bigbio_kb/test-*
  - split: validation
    path: chemprot_bigbio_kb/validation-*
- config_name: chemprot_full_source
  data_files:
  - split: sample
    path: chemprot_full_source/sample-*
  - split: train
    path: chemprot_full_source/train-*
  - split: test
    path: chemprot_full_source/test-*
  - split: validation
    path: chemprot_full_source/validation-*
  default: true
- config_name: chemprot_shared_task_eval_source
  data_files:
  - split: sample
    path: chemprot_shared_task_eval_source/sample-*
  - split: train
    path: chemprot_shared_task_eval_source/train-*
  - split: test
    path: chemprot_shared_task_eval_source/test-*
  - split: validation
    path: chemprot_shared_task_eval_source/validation-*
---


# Dataset Card for ChemProt

## Dataset Description

- **Homepage:** https://biocreative.bioinformatics.udel.edu/tasks/biocreative-vi/track-5/
- **Pubmed:** True
- **Public:** True
- **Tasks:** RE,NER


The BioCreative VI Chemical-Protein interaction dataset identifies entities of
chemicals and proteins and their likely relation to one other. Compounds are
generally agonists (activators) or antagonists (inhibitors) of proteins.



## Citation Information

```
@article{DBLP:journals/biodb/LiSJSWLDMWL16,
  author    = {Krallinger, M., Rabal, O., Lourenço, A.},
  title     = {Overview of the BioCreative VI chemical-protein interaction Track},
  journal   = {Proceedings of the BioCreative VI Workshop,},
  volume    = {141-146},
  year      = {2017},
  url       = {https://biocreative.bioinformatics.udel.edu/tasks/biocreative-vi/track-5/},
  doi       = {},
  biburl    = {},
  bibsource = {}
}

```