Datasets:

zwang2
/

virus_host_db

dataset_info:
  features:
    - name: virus_tax_id
      dtype: string
    - name: virus_name
      dtype: string
    - name: virus_lineage
      dtype: string
    - name: host_tax_id
      dtype: string
    - name: host_name
      dtype: string
    - name: host_lineage
      dtype: string
    - name: sequence
      dtype: string
    - name: disease
      dtype: string
    - name: refseq_id
      dtype: string
    - name: pmid
      dtype: string
    - name: evidence
      dtype: string
    - name: sample_type
      dtype: string
    - name: source_organism
      dtype: string
    - name: virus_kingdom
      dtype: string
    - name: host_kingdom
      dtype: string
    - name: date_added
      dtype: string
  splits:
    - name: train
      num_bytes: 1720225425
      num_examples: 36470
  download_size: 718607730
  dataset_size: 1720225425
configs:
  - config_name: default
    data_files:
      - split: train
        path: data/train-*

Virus-Host Database for Viral Genomics

Dataset Summary

This dataset consolidates information from the Virus-Host DB, a resource by the Kyoto University Bioinformatics Center that documents virus-host relationships using taxonomy identifiers from NCBI and RefSeq. It includes viral genomic data, host associations, and metadata, offering a comprehensive resource for studying virus-host interactions.

Source and Citation

Data in this dataset is sourced from the Virus-Host DB, maintained by Kyoto University’s Bioinformatics Center, which compiles data from GenBank, UniProt, and additional literature curation. Please cite:

Mihara, T., et al. (2016). Linking Virus Genomes with Host Taxonomy. Nucleic Acids Research, 44(D1): D549-554. DOI: 10.1093/nar/gkv1261.

Dataset Structure

Key Fields

virus_tax_id: NCBI Taxonomy ID for the virus
host_tax_id: NCBI Taxonomy ID for the host
sequence: Viral genome sequence
lineages: Taxonomic classifications for viruses and hosts
disease: Associated diseases
pmid: PubMed ID references

Usage Example

Load the dataset using the Hugging Face library:

from datasets import load_dataset
dataset = load_dataset("zwang2/virus_host_db")

Applications

This dataset supports research in virology, epidemiology, and bioinformatics, enabling analysis of virus evolution, host specificity, and pathogen emergence patterns.

Licensing and Acknowledgments

The dataset follows licensing terms provided by the Virus-Host DB and NCBI GenBank. Access Virus-Host DB’s terms of use for more details.