
# KPBiomed, A Large-Scale Dataset for keyphrase generation
## About
  
This dataset is made of 5.6 million abstracts with author assigned keyphrases.

Details about the dataset can be found in the original paper:
Maël Houbre, Florian Boudin and Béatrice Daille. 2022. [A Large-Scale Dataset for Biomedical Keyphrase Generation](https://arxiv.org/abs/2211.12124). In Proceedings of the 13th International Workshop on Health Text Mining and Information Analysis (LOUHI 2022).

  
Reference (author-assigned) keyphrases are also categorized under the PRMU (<u>P</u>resent-<u>R</u>eordered-<u>M</u>ixed-<u>U</u>nseen) scheme as proposed in the following paper:
 - Florian Boudin and Ygor Gallina. 2021.
   [Redefining Absent Keyphrases and their Effect on Retrieval Effectiveness](https://aclanthology.org/2021.naacl-main.330/). 
   In Proceedings of the 2021 Conference of the North American Chapter of the Association for Computational Linguistics: Human Language Technologies, pages 4185–4193, Online. Association for Computational Linguistics.
   
Text pre-processing (tokenization) is carried out using spacy (en_core_web_sm model) with a special rule to avoid splitting words with hyphens (e.g. graph-based is kept as one token). Stemming (Porter's stemmer implementation provided in nltk) is applied before reference keyphrases are matched against the source text.   
  
## Content

The details of the dataset are in the table below:

| Split        | # documents | # keyphrases by document (average) | % Present | % Reordered | % Mixed | % Unseen |
| :----------- | ----------: | ---------------------------------: | --------: | ----------: | ------: | -------: |
| Train small  |    500k     |               5.24                 |   66.31   |    7.16     |  12.60  |  13.93   |
| Train medium |    2M       |               5.24                 |   66.30   |    7.18     |  12.57  |  13.95   |
| Train large  |    5.6M     |               5.23                 |   66.32   |    7.18     |  12.55  |  13.95   |
| Validation   |    20k      |               5.25                 |   66.44   |    7.07     |  12.45  |  14.05   |
| Test         |    20k      |               5.22                 |   66.59   |    7.22     |  12.44  |  13.75   |



The following data fields are available:
- **id**: unique identifier of the document.
- **title**: title of the document.
- **abstract**: abstract of the document.
- **keyphrases**: list of reference keyphrases.
- **mesh terms**: list of indexer assigned MeSH terms if available (around 68% of the articles)
- **prmu**: list of <u>P</u>resent-<u>R</u>eordered-<u>M</u>ixed-<u>U</u>nseen categories for reference keyphrases.
- **authors**: list of the article's authors
- **year**: publication year

**NB**: The present keyphrases (represented by the "P" label in the PRMU column) are sorted by their apparition order in the text (title + text).



task_categories:text-generation annotations_creators:unknown language_creators:unknown multilinguality:monolingual size_categories:100K<n<1M language:en license:cc-by-nc-4.0 arxiv:2211.12124 region:us
{"annotations_creators": ["unknown"], "language_creators": ["unknown"], "language": ["en"], "license": ["cc-by-nc-4.0"], "multilinguality": ["monolingual"], "size_categories": ["100K<n<1M"], "task_categories": ["text-mining", "text-generation"], "task_ids": ["keyphrase-generation", "keyphrase-extraction"], "pretty_name": "KP-Biomed"}
TAGS
#task_categories-text-generation #annotations_creators-unknown #language_creators-unknown #multilinguality-monolingual #size_categories-100K<n<1M #language-English #license-cc-by-nc-4.0 #arxiv-2211.12124 #region-us 

KPBiomed, A Large-Scale Dataset for keyphrase generation
========================================================


About
-----


This dataset is made of 5.6 million abstracts with author assigned keyphrases.


Details about the dataset can be found in the original paper:
Maël Houbre, Florian Boudin and Béatrice Daille. 2022. A Large-Scale Dataset for Biomedical Keyphrase Generation. In Proceedings of the 13th International Workshop on Health Text Mining and Information Analysis (LOUHI 2022).


Reference (author-assigned) keyphrases are also categorized under the PRMU (Present-Reordered-Mixed-Unseen) scheme as proposed in the following paper:


* Florian Boudin and Ygor Gallina. 2021.
Redefining Absent Keyphrases and their Effect on Retrieval Effectiveness.
In Proceedings of the 2021 Conference of the North American Chapter of the Association for Computational Linguistics: Human Language Technologies, pages 4185–4193, Online. Association for Computational Linguistics.


Text pre-processing (tokenization) is carried out using spacy (en\_core\_web\_sm model) with a special rule to avoid splitting words with hyphens (e.g. graph-based is kept as one token). Stemming (Porter's stemmer implementation provided in nltk) is applied before reference keyphrases are matched against the source text.


Content
-------


The details of the dataset are in the table below:



The following data fields are available:


* id: unique identifier of the document.
* title: title of the document.
* abstract: abstract of the document.
* keyphrases: list of reference keyphrases.
* mesh terms: list of indexer assigned MeSH terms if available (around 68% of the articles)
* prmu: list of Present-Reordered-Mixed-Unseen categories for reference keyphrases.
* authors: list of the article's authors
* year: publication year


NB: The present keyphrases (represented by the "P" label in the PRMU column) are sorted by their apparition order in the text (title + text).



TAGS
#task_categories-text-generation #annotations_creators-unknown #language_creators-unknown #multilinguality-monolingual #size_categories-100K<n<1M #language-English #license-cc-by-nc-4.0 #arxiv-2211.12124 #region-us 

passage: TAGS
#task_categories-text-generation #annotations_creators-unknown #language_creators-unknown #multilinguality-monolingual #size_categories-100K<n<1M #language-English #license-cc-by-nc-4.0 #arxiv-2211.12124 #region-us 
