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Datasets:
LucaGroup
/
LucaOne-Downstream-Task-Datasets

Tasks:
Text Classification
Modalities:
Text
Languages:
English
Tags:
LucaOne
Bioinformatics
Protein
Gene
RNA
DNA
License:
Dataset card Data Studio Files
xet
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  • split: dev
    path: dataset/ncRNAFam/gene/multi_class/dev/dev.csv

  • split: test
    path: dataset/ncRNAFam/gene/multi_class/test/test.csv

  • split: label
    path: dataset/ncRNAFam/gene/multi_class/label.txt

  • config_name: ncRPI
    data_files:

    • split: train
      path: dataset/ncRPI/gene_protein/binary_class/train/train.csv
    • split: dev
      path: dataset/ncRPI/gene_protein/binary_class/dev/dev.csv
    • split: test
      path: dataset/ncRPI/gene_protein/binary_class/test/test.csv

  • config_name: PPI
    data_files:

    • split: train
      path: dataset/PPI/protein/binary_class/train/train.csv
    • split: dev
      path: dataset/PPI/protein/binary_class/dev/dev.csv
    • split: test
      path: dataset/PPI/protein/binary_class/test/test.csv

  • config_name: ProtLoc
    data_files:

    • split: train
      path: dataset/ProtLoc/protein/multi_class/train/train.csv
    • split: dev
      path: dataset/ProtLoc/protein/multi_class/dev/dev.csv
    • split: test
      path: dataset/ProtLoc/protein/multi_class/test/test.csv

  • config_name: ProtLocCDSGene
    data_files:

    • split: train
      path: dataset/ProtLocCDSGene/gene/multi_class/train/train.csv
    • split: dev
      path: dataset/ProtLocCDSGene/gene/multi_class/dev/dev.csv
    • split: test
      path: dataset/ProtLocCDSGene/gene/multi_class/test/test.csv

  • config_name: ProtLocCDSProt
    data_files:

    • split: train
      path: dataset/ProtLocCDSProt/protein/multi_class/train/train.csv
    • split: dev
      path: dataset/ProtLocCDSProt/protein/multi_class/dev/dev.csv
    • split: test
      path: dataset/ProtLocCDSProt/protein/multi_class/test/test.csv
    • split: label
      path: dataset/ProtLocCDSProt/protein/multi_class/label.txt

  • config_name: ProtStab
    data_files:

    • split: train
      path: dataset/ProtStab/protein/regression/train/train.csv
    • split: dev
      path: dataset/ProtStab/protein/regression/dev/dev.csv
    • split: test
      path: dataset/ProtStab/protein/regression/test/test.csv

  • config_name: SpeciesTax
    data_files:

    • split: train
      path: dataset/SpeciesTax/gene/multi_class/train/train.csv
    • split: dev
      path: dataset/SpeciesTax/gene/multi_class/dev/dev.csv
    • split: test
      path: dataset/SpeciesTax/gene/multi_class/test/test.csv

  • config_name: SupKTax
    data_files:

    • split: train
      path: dataset/SupKTax/gene/multi_class/train/train.csv
    • split: dev
      path: dataset/SupKTax/gene/multi_class/dev/dev.csv
    • split: test
      path: dataset/SupKTax/gene/multi_class/test/test.csv

LucaOne-Downstream-Task-Datasets

This directory includes all the downstream task datasets of the LucaOne paper (https://www.nature.com/articles/s42256-025-01044-4).

Dataset Structure

This dataset includes three splits and a label info file:

  • train(training dataset)
  • dev (validation dataset)
  • test (testing dataset)
  • label.txt (label name to label index in *.csv, label_idx=${the line number of label_name - 1})

Usage: 

from datasets import load_dataset


# load ncRPI dataset
ds = load_dataset("LucaGroup/LucaOne-Downstream-Task-Datasets", name="ncRPI")

Github

https://github.com/LucaOne/ - split: dev
path: dataset/ncRNAFam/gene/multi_class/dev/dev.csv

  • split: test
    path: dataset/ncRNAFam/gene/multi_class/test/test.csv

  • split: label
    path: dataset/ncRNAFam/gene/multi_class/label.txt

  • config_name: ncRPI
    data_files:

    • split: train
      path: dataset/ncRPI/gene_protein/binary_class/train/train.csv
    • split: dev
      path: dataset/ncRPI/gene_protein/binary_class/dev/dev.csv
    • split: test
      path: dataset/ncRPI/gene_protein/binary_class/test/test.csv

  • config_name: PPI
    data_files:

    • split: train
      path: dataset/PPI/protein/binary_class/train/train.csv
    • split: dev
      path: dataset/PPI/protein/binary_class/dev/dev.csv
    • split: test
      path: dataset/PPI/protein/binary_class/test/test.csv

  • config_name: ProtLoc
    data_files:

    • split: train
      path: dataset/ProtLoc/protein/multi_class/train/train.csv
    • split: dev
      path: dataset/ProtLoc/protein/multi_class/dev/dev.csv
    • split: test
      path: dataset/ProtLoc/protein/multi_class/test/test.csv

  • config_name: ProtLocCDSGene
    data_files:

    • split: train
      path: dataset/ProtLocCDSGene/gene/multi_class/train/train.csv
    • split: dev
      path: dataset/ProtLocCDSGene/gene/multi_class/dev/dev.csv
    • split: test
      path: dataset/ProtLocCDSGene/gene/multi_class/test/test.csv

  • config_name: ProtLocCDSProt
    data_files:

    • split: train
      path: dataset/ProtLocCDSProt/protein/multi_class/train/train.csv
    • split: dev
      path: dataset/ProtLocCDSProt/protein/multi_class/dev/dev.csv
    • split: test
      path: dataset/ProtLocCDSProt/protein/multi_class/test/test.csv
    • split: label
      path: dataset/ProtLocCDSProt/protein/multi_class/label.txt

  • config_name: ProtStab
    data_files:

    • split: train
      path: dataset/ProtStab/protein/regression/train/train.csv
    • split: dev
      path: dataset/ProtStab/protein/regression/dev/dev.csv
    • split: test
      path: dataset/ProtStab/protein/regression/test/test.csv

  • config_name: SpeciesTax
    data_files:

    • split: train
      path: dataset/SpeciesTax/gene/multi_class/train/train.csv
    • split: dev
      path: dataset/SpeciesTax/gene/multi_class/dev/dev.csv
    • split: test
      path: dataset/SpeciesTax/gene/multi_class/test/test.csv

  • config_name: SupKTax
    data_files:

    • split: train
      path: dataset/SupKTax/gene/multi_class/train/train.csv
    • split: dev
      path: dataset/SupKTax/gene/multi_class/dev/dev.csv
    • split: test
      path: dataset/SupKTax/gene/multi_class/test/test.csv

LucaOne-Downstream-Task-Datasets

This directory includes all the downstream task datasets of the LucaOne paper (https://www.nature.com/articles/s42256-025-01044-4).

Dataset Structure

This dataset includes three splits and a label info file:

  • train(training dataset)
  • dev (validation dataset)
  • test (testing dataset)
  • label.txt (label name to label index in *.csv, label_idx=${the line number of label_name - 1})

Usage: 

from datasets import load_dataset


# load ncRPI dataset
ds = load_dataset("LucaGroup/LucaOne-Downstream-Task-Datasets", name="ncRPI")

Github

https://github.com/LucaOne/
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