Gharaee/BIOSCAN_1M_Insect_Dataset

BIOSCAN_1M Insect Dataset

Website: https://biodiversitygenomics.net/1M_insects/

GitHub: https://github.com/zahrag/BIOSCAN-1M

Zenodo: https://zenodo.org/records/8030065

Kaggle: https://www.kaggle.com/datasets/zahragharaee/bioscan-1m-insect-dataset

Paper: https://arxiv.org/abs/2307.10455

cite as:

@inproceedings{gharaee2023step,
    title={A Step Towards Worldwide Biodiversity Assessment: The {BIOSCAN-1M} Insect Dataset},
    booktitle={Advances in Neural Information Processing Systems},
    author={Gharaee, Z. and Gong, Z. and Pellegrino, N. and Zarubiieva, I. and Haurum, J. B. and Lowe, S. C. and McKeown, J. T. A. and Ho, C. Y. and McLeod, J. and Wei, Y. C. and Agda, J. and Ratnasingham, S. and Steinke, D. and Chang, A. X. and Taylor, G. W. and Fieguth, P.},
    editor={A. Oh and T. Neumann and A. Globerson and K. Saenko and M. Hardt and S. Levine},
    pages={43593--43619},
    publisher={Curran Associates, Inc.},
    year={2023},
    volume={36},
    url={https://proceedings.neurips.cc/paper_files/paper/2023/file/87dbbdc3a685a97ad28489a1d57c45c1-Paper-Datasets_and_Benchmarks.pdf},
}

A Dataset Record

BIOSCAN dataset provides researchers with information about insects. Each record of the BIOSCAN-1M Insect dataset contains four primary attributes:

• DNA barcode sequence
• Barcode Index Number (BIN)
• Biological taxonomy ranking annotations
• RGB image

I. DNA barcode sequence

The provided DNA barcode sequence showcases the arrangement of nucleotides:

• Adenine (A): Red
• Thymine (T): Blue
• Cytosine (C): Green
• Guanine (G): Yellow

TTTATATTTTATTTTTGGAGCATGATCAGGAATAGTTGGAACTTCAATAAGTTTATTAATTCGAACAGAATTAAGCCAACCAGGAATTTTTA ...

II. Barcode Index Number (BIN)

BINs, acting as an alternative to Linnean names, provide a genetic-centric classification for organisms, emphasizing the significance of genetic code in taxonomy.

BOLD:AER5166

III. Biological taxonomy ranking annotations

Taxonomic group ranking annotations categorize organisms hierarchically based on evolutionary relationships. It organizes species into groups based on shared characteristics and genetic relatedness.

IV. RGB image

Original insect images from 16 most densly populated orders of the BIOSCAN-1M Insect dataset. The numbers below each image identify the number of images in each class, and clearly illustrate the degree of class imbalance in the BIOSCAN-1M Insect dataset.

Diptera: 896,234	Hymenoptera: 89,311	Coleoptera: 47,328	Hemiptera: 46,970
Lepidoptera: 32,538	Psocodea: 9,635	Thysanoptera: 2,088	Trichoptera: 1,296
Orthoptera: 1,057	Blattodea: 824	Neuroptera: 676	Ephemeroptera: 96
Dermaptera: 66	Archaeognatha: 63	Plecoptera: 30	Embioptera: 6

Class Distribution

Class distribution and class imbalance in the BIOSCAN-1M Insect dataset. Orders (top) and diptera families (bottom). The image demonstrates that class imbalance is an inherent characteristic within the insect community.