pulmo/ncbi-genbank-complete

Dataset Card for NCBI GenBank Complete

Dataset Summary

GenBank® is the NIH genetic sequence database, an annotated collection of all publicly available DNA sequences. GenBank is part of the International Nucleotide Sequence Database Collaboration (INSDC), which comprises the DNA DataBank of Japan (DDBJ), the European Nucleotide Archive (ENA), and GenBank at NCBI. These three organizations exchange data on a daily basis.

This dataset has been processed into a parquet format suitable for machine learning training, consisting of genomic sequences and their corresponding accessions. Note that compared to RefSeq, GenBank is redundant and contains sequences exactly as submitted by authors.

Supported Tasks and Leaderboards

This dataset can be used to train massive genomic foundational models, perform broad sequence classification, or study genetic diversity.

Languages

The data is genomic sequence data (DNA/RNA) represented as strings of nucleotides (A, C, G, T, N).

Dataset Structure

Data Instances

Each instance in the dataset represents a sequence of nucleotides.

{
  "accession": "U49845.1_part1",
  "sequence": "GATCGATCGATC..."
}

Data Fields

• accession: The NCBI access identifier for the sequence (e.g., U49845.1). Large sequences may be partitioned with _partXXX suffixes to limit chunk sizes.
• sequence: The raw nucleotide sequence strings.

Data Splits

The dataset is provided as a single train split containing all sequences.

Dataset Creation

Curation Rationale

GenBank is designed to provide and encourage access within the scientific community to the most up-to-date and comprehensive DNA sequence information.

Source Data

• Initial Data Collection and Normalization: Sequences are submitted directly to GenBank by scientists globally.
• Who are the source language producers? The data represents genetic material from various organisms, submitted by the global scientific community.

Considerations for Using the Data

Social Impact of Dataset

Genomic datasets can have a profound impact on medical research, drug discovery, and biological understanding. GenBank's sheer scale allows for the study of unprecedented biological diversity.

Discussion of Biases

GenBank is completely dependent on submissions from the scientific community. Therefore, species that are heavily researched or sequenced frequently are significantly overrepresented.

Additional Information

Dataset Curators

The database is housed and maintained by the National Center for Biotechnology Information (NCBI).

Licensing Information

Data from NCBI GenBank is in the public domain and freely available for use.

ML Dataset Attribution

This dataset (GenBank Release 272) was retrieved and optimally processed by huggingworld. The sequence data has been specifically serialized into parquet format using the latest pyarrow standards, targeted specifically for ML Research and massive-scale model training. If you utilize this processed version of the dataset in your research or applications, please cite or acknowledge this repository.

Citation Information

@misc{huggingworld2026ncbigenbank,
  author       = {huggingworld},
  title        = {NCBI GenBank Complete (Release 271) April 15 2026 - Processed for ML Research},
  year         = {2026},
  publisher    = {Hugging Face},
  howpublished = {\url{https://huggingface.co/datasets/pulmo/ncbi-genbank-complete}}
}

@article{10.1093/nar/gks1195,
    author = {Benson, Dennis A. and Cavanaugh, Mark and Clark, Karen and Karsch-Mizrachi, Ilene and Lipman, David J. and Ostell, James and Sayers, Eric W.},
    title = "{GenBank}",
    journal = {Nucleic Acids Research},
    volume = {41},
    number = {D1},
    pages = {D36-D42},
    year = {2012},
    month = {11},
    issn = {0305-1048},
    doi = {10.1093/nar/gks1195},
    url = {https://doi.org/10.1093/nar/gks1195},
    eprint = {https://huggingface.co/datasets/pulmo/ncbi-genbank-complete/resolve/main/gks1195.pdf},
}