README.md

---
license: mit
task_categories:
- text-generation
language:
- en
tags:
- pubmed embedding
size_categories:
- 100M<n<1B
---
# PubMed Embeddings Dataset

This dataset contains embeddings generated from the PubMed dataset, which can be found at https://huggingface.co/datasets/ncbi/pubmed. The embeddings were created using the NeuML/pubmedbert-base-embedding model.

## Dataset Structure

Each line in the dataset represents a single embedding in the form of a list. The format for each entry is defined as follows:

```python
node.id_ = f"node-{tpubmed}-{idx}"
node.metadata["title"] = ttitle
node.metadata["author"] = firstAuthor
node.metadata["pubmed"] = tpubmed
node.metadata["date"] = tdate
node.metadata["key"] = tpubmed
node.metadata["source"] = "Pubmed"
```

- `node.id_`: A unique identifier for each node, formatted as `node-{tpubmed}-{idx}`, where `tpubmed` is the PubMed ID and `idx` is the index of the entry.
- `node.metadata["title"]`: The title of the PubMed article.
- `node.metadata["author"]`: The first author of the PubMed article.
- `node.metadata["pubmed"]`: The PubMed ID of the article.
- `node.metadata["date"]`: The publication date of the article.
- `node.metadata["key"]`: The PubMed ID of the article (same as `node.metadata["pubmed"]`).
- `node.metadata["source"]`: The source of the data, which is always "Pubmed".

## Usage

To use this dataset, you can load it into your preferred data processing library or tool. Each line in the dataset represents a single embedding, and the metadata associated with each embedding can be accessed using the keys defined in the format above.

## Original Data Source

The original data used to create these embeddings can be found at https://huggingface.co/datasets/ncbi/pubmed. Please refer to the documentation and license of the original dataset for more information on its contents and usage.

## Embedding Model

The embeddings in this dataset were generated using the NeuML/pubmedbert-base-embedding model. For more information on the model and its performance, please refer to the model's documentation.


This dataset card aims to be a base template for new datasets. It has been generated using [this raw template](https://github.com/huggingface/huggingface_hub/blob/main/src/huggingface_hub/templates/datasetcard_template.md?plain=1).


## Uses

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### Direct Use

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## Dataset Structure

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## Dataset Creation

### Curation Rationale

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### Source Data

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#### Data Collection and Processing

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#### Who are the source data producers?

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### Annotations [optional]

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#### Annotation process

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#### Who are the annotators?

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#### Personal and Sensitive Information

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## Bias, Risks, and Limitations

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### Recommendations

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Users should be made aware of the risks, biases and limitations of the dataset. More information needed for further recommendations.

## Citation [optional]

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## Glossary [optional]

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## Dataset Card Authors [optional]

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## Dataset Card Contact

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